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Pfam release : 34.0 Pfam-A families : 19179 Date : 2021-03 Based on UniProtKB : 2020_06
Best resolution complexes of Pfam family representatives, bound with nucleic acid

List of Pfam families detected in NPIDB entries:
Pfam ID  Domain  # of entries  # of domains  # of bound domains 
  2OG-FeII_Oxy_2   2OG-Fe(II) oxygenase superfamily 45 47 46
  40S_S4_C   40S ribosomal protein S4 C-terminus 63 63 56
  40S_SA_C   40S ribosomal protein SA C-terminus 24 24 0
  4HBT   Thioesterase superfamily 1 4 0
  5_3_exonuc   5'-3' exonuclease, C-terminal SAM fold 7 8 7
  5_3_exonuc_N   5'-3' exonuclease, N-terminal resolvase-like domain 8 9 6
  7kD_DNA_binding   7kD DNA-binding domain 19 22 21
  AAA   ATPase family associated with various cellular activities (AAA) 16 29 26
  AAA_11   AAA domain 12 19 14
  AAA_12   AAA domain 20 30 13
  AAA_16   AAA ATPase domain 8 15 7
  AAA_19   AAA domain 2 2 1
  AAA_21   AAA domain, putative AbiEii toxin, Type IV TA system 1 1 0
  AAA_22   AAA domain 16 28 10
  AAA_23   AAA domain 5 12 9
  AAA_30   AAA domain 21 34 22
  AAA_31   AAA domain 3 16 2
  AAA_33   AAA domain 12 20 12
  AAA_lid_10   AAA lid domain 13 18 0
  AARP2CN   AARP2CN (NUC121) domain 12 12 7
  ABC_tran   ABC transporter 9 17 10
  ABC_tran_Xtn   ABC transporter 1 1 1
  Acetyltransf_7   Acetyltransferase (GNAT) domain 3 11 2
  Aconitase   Aconitase family (aconitate hydratase) 2 3 3
  Aconitase_C   Aconitase C-terminal domain 2 3 3
  Actin   Actin 12 20 3
  Activator_LAG-3   Transcriptional activator LAG-3 1 1 0
  Adaptin_N   Adaptin N terminal region 2 2 2
  Ada_Zn_binding   Metal binding domain of Ada 2 2 2
  Adenine_glyco   Methyladenine glycosylase 1 1 1
  AF-4   AF-4 proto-oncoprotein N-terminal region 2 3 0
  AFT   Transcription factor AFT 1 4 4
  AGO_N   Argonaute N domain 1 2 0
  Ago_N_1   Fungal Argonaute N-terminal domain 1 2 0
  Ago_PAZ   Argonaute PAZ domain 21 31 28
  AGT   DNA alpha-glucosyltransferase 4 11 11
  AHSA1   Activator of Hsp90 ATPase homolog 1-like protein 1 1 1
  Alba   Alba 11 17 14
  Aldo_ket_red   Aldo/keto reductase family 1 1 1
  AlkA_N   AlkA N-terminal domain 12 38 0
  Amidase   Amidase 3 7 2
  Amino_oxidase   Flavin containing amine oxidoreductase 4 7 5
  ANAPC4_WD40   Anaphase-promoting complex subunit 4 WD40 domain 8 17 10
  Ank_2   Ankyrin repeats (3 copies) 10 25 6
  Ank_4   Ankyrin repeats (many copies) 1 1 0
  Ank_5   Ankyrin repeats (many copies) 4 5 3
  Anticodon_1   Anticodon-binding domain of tRNA ligase 25 41 41
  Anticodon_2   Anticodon binding domain 9 19 19
  AP2   AP2 domain 4 7 7
  APOBEC2   APOBEC2 2 4 2
  APOBEC3   APOBEC3 4 9 9
  AP_endonuc_2   Xylose isomerase-like TIM barrel 6 12 11
  Aquarius_N   Intron-binding protein aquarius N-terminus 8 8 1
  AraR_C   AraR C-terminal winged HTH domain 2 4 4
  Arb2   Arb2 domain 1 2 1
  Arc   Arc-like DNA binding domain 4 16 16
  ArenaCapSnatch   Arenavirus cap snatching domain 5 9 0
  Arena_ncap_C   Arenavirus nucleocapsid C-terminal domain 5 5 5
  Arena_nucleocap   Arenavirus nucleocapsid N-terminal domain 2 8 8
  Arena_RNA_pol   Arenavirus RNA polymerase 5 18 15
  ArfA   Alternative ribosome-rescue factor A 1 1 1
  ArgoL1   Argonaute linker 1 domain 31 35 25
  ArgoL2   Argonaute linker 2 domain 31 35 14
  ArgoMid   Mid domain of argonaute 31 35 6
  ArgoN   N-terminal domain of argonaute 33 37 17
  Arg_repressor   Arginine repressor, DNA binding domain 5 24 24
  Arg_repressor_C   Arginine repressor, C-terminal domain 4 20 0
  Arg_tRNA_synt_N   Arginyl tRNA synthetase N terminal domain 6 12 10
  ARID   ARID/BRIGHT DNA binding domain 3 3 3
  Arm   Armadillo/beta-catenin-like repeat 1 1 1
  Arm-DNA-bind_1   Bacteriophage lambda integrase, Arm DNA-binding domain 4 10 10
  Arm-DNA-bind_3   Arm DNA-binding domain 1 2 2
  AsiA   Anti-Sigma Factor A 1 1 1
  Asparaginase   Asparaginase, N-terminal 1 2 0
  Asparaginase_C   Glutaminase/Asparaginase C-terminal domain 1 2 0
  ATP-synt_ab   ATP synthase alpha/beta family, nucleotide-binding domain 22 134 43
  ATP_bind_3   PP-loop family 1 2 2
  Autoind_bind   Autoinducer binding domain 2 8 0
  Auxin_resp   Auxin response factor 3 6 0
  AWS   AWS domain 8 9 0
  A_deamin   Adenosine-deaminase (editase) domain 7 12 8
  B12-binding   B12 binding domain 1 8 0
  B12-binding_2   B12 binding domain 1 8 0
  B2   RNA binding protein B2 2 4 4
  B3   B3 DNA binding domain 10 19 18
  B3_4   B3/4 domain 10 12 6
  B5   tRNA synthetase B5 domain 6 8 0
  B56   Protein phosphatase 2A regulatory B subunit (B56 family) 2 4 0
  Bac_DnaA   Bacterial dnaA protein 1 4 4
  Bac_DnaA_C   Bacterial dnaA protein helix-turn-helix 4 9 5
  Bac_DNA_binding   Bacterial DNA-binding protein 23 60 53
  BAF   Barrier to autointegration factor 1 1 1
  BAF250_C   SWI/SNF-like complex subunit BAF250/Osa 1 1 0
  BAH   BAH domain 13 37 9
  BamHI   Restriction endonuclease BamHI 5 12 11
  BCAS2   Breast carcinoma amplified sequence 2 (BCAS2) 14 19 13
  BDV_P40   Borna disease virus P40 protein 2 2 2
  BEN   BEN domain 2 6 6
  BES1_N   BES1/BZR1 plant transcription factor, N-terminal 1 4 0
  BET   Bromodomain extra-terminal - transcription regulation 1 1 0
  Beta-Casp   Beta-Casp domain 2 6 6
  BfiI_DBD   Metal-independent restriction enzyme BfiI DNA binding domain 1 2 2
  BHD_1   Rad4 beta-hairpin domain 1 8 8 8
  BHD_3   Rad4 beta-hairpin domain 3 9 9 7
  Bin3   Bicoid-interacting protein 3 (Bin3) 2 3 3
  BING4CT   BING4CT (NUC141) domain 1 1 1
  BOP1NT   BOP1NT (NUC169) domain 5 7 6
  BP28CT   BP28CT (NUC211) domain 1 1 0
  BpuJI_N   Restriction endonuclease BpuJI - N terminal 4 5 5
  BRCA-2_helical   BRCA2, helical 1 1 0
  BRCA-2_OB1   BRCA2, oligonucleotide/oligosaccharide-binding, domain 1 1 1 0
  BRCA-2_OB3   BRCA2, oligonucleotide/oligosaccharide-binding, domain 3 1 1 1
  BRCT   BRCA1 C Terminus (BRCT) domain 5 8 1
  BRCT_2   BRCT domain, a BRCA1 C-terminus domain 10 11 0
  BRF1   Brf1-like TBP-binding domain 10 13 0
  Brix   Brix domain 7 16 11
  BrkDBD   Brinker DNA-binding domain 1 1 1
  Bromodomain   Bromodomain 5 5 0
  Bromo_coat   Bromovirus coat protein 1 3 3
  Bromo_TP   Bromodomain associated 8 15 0
  BSD   BSD domain 19 31 0
  Bse634I   Cfr10I/Bse634I restriction endonuclease 12 38 36
  BTD   Beta-trefoil DNA-binding domain 15 24 10
  Btz   CASC3/Barentsz eIF4AIII binding 6 18 9
  Bud13   Pre-mRNA-splicing factor of RES complex 6 7 0
  Bunya_nucleocap   Bunyavirus nucleocapsid (N) protein 6 28 28
  Bunya_RdRp   Bunyavirus RNA dependent RNA polymerase 5 5 5
  Bystin   Bystin 7 7 7
  bZIP_1   bZIP transcription factor 14 34 34
  bZIP_2   Basic region leucine zipper 18 38 38
  bZIP_Maf   bZIP Maf transcription factor 6 14 12
  C1-set   Immunoglobulin C1-set domain 35 96 5
  C1_1   Phorbol esters/diacylglycerol binding domain (C1 domain) 1 1 0
  C1_4   TFIIH C1-like domain 21 21 0
  C2-set_2   CD80-like C2-set immunoglobulin domain 2 4 2
  CAF1   CAF1 family ribonuclease 1 2 2
  CAF1C_H4-bd   Histone-binding protein RBBP4 or subunit C of CAF1 complex 1 1 0
  CarD_CdnL_TRCF   CarD-like/TRCF domain 22 24 16
  Cas3_C   Cas3 C-terminal domain 5 33 33
  Cas5fv_helical   Cas5fv helical domain 2 2 1
  Cas6b_C   Cas6b C-terminal domain 2 8 5
  Cas6b_N   Cas6b N-terminal domain 2 8 4
  Cas6_N   Cas6 N-terminal domain 2 8 8
  Cas9-BH   Bridge helix of CRISPR-associated endonuclease Cas9 36 41 41
  Cas9_a   Cas9 alpha-helical lobe domain 15 20 20
  Cas9_b_hairpin   CRISPR-associated endonuclease Cas9 beta-hairpin domain 3 3 3
  Cas9_C   Cas9 C-terminal domain 3 3 3
  Cas9_PI   PAM-interacting domain of CRISPR-associated endonuclease Cas9 34 39 39
  Cas9_PI2   CRISPR-Cas9 PI domain 10 11 11
  Cas9_REC   REC lobe of CRISPR-associated endonuclease Cas9 34 39 39
  Cas9_Topo   Topo homolgy domain in CRISPR-associated endonuclease Cas9 3 3 3
  Cas_Cas1   CRISPR associated protein Cas1 20 159 75
  Cas_Cas2CT1978   CRISPR-associated protein (Cas_Cas2CT1978) 11 24 10
  Cas_Cas5d   CRISPR-associated protein (Cas_Cas5) 9 13 13
  Cas_Cas6   CRISPR associated protein Cas6 4 7 7
  Cas_Cas7   CRISPR-associated protein Cas7 4 20 20
  Cas_Cmr3   CRISPR-associated protein (Cas_Cmr3) 8 15 15
  Cas_Cmr5   CRISPR-associated protein (Cas_Cmr5) 1 2 2
  Cas_Csd1   CRISPR-associated protein (Cas_Csd1) 1 4 1
  Cas_Csn2   CRISPR-associated protein (Cas_Csn2) 3 40 6
  Cas_csx3   CRISPR-associated protein (Cas_csx3) 2 12 12
  Cas_Csy1   CRISPR-associated protein (Cas_Csy1) 14 15 14
  Cas_Csy2   CRISPR-associated protein (Cas_Csy2) 22 22 22
  Cas_Csy3   CRISPR-associated protein (Cas_Csy3) 25 169 168
  Cas_Csy4   CRISPR-associated protein (Cas_Csy4) 31 33 31
  Cas_CT1975   CT1975-like protein 8 79 75
  Cas_DxTHG   CRISPR-associated (Cas) DxTHG family 4 10 10
  CAT_RBD   CAT RNA binding domain 1 2 2
  Cauli_VI   Caulimovirus viroplasmin 1 6 6
  CBF   CBF/Mak21 family 1 1 0
  CBFB_NFYA   CCAAT-binding transcription factor (CBF-B/NF-YA) subunit B 7 9 6
  CBFD_NFYB_HMF   Histone-like transcription factor (CBF/NF-Y) and archaeal histone 13 32 32
  CBF_beta   Core binding factor beta subunit 12 20 0
  CcdA   Post-segregation antitoxin CcdA 2 4 3
  CCT   CCT motif 3 6 6
  Cdc13_OB4_dimer   Cdc13 OB4 dimerization domain 1 1 0
  CDC27   DNA polymerase subunit Cdc27 5 5 0
  CDC45   CDC45-like protein 9 20 0
  Cdc6_C   CDC6, C terminal winged helix domain 14 20 8
  CDC73_N   Paf1 complex subunit CDC73 N-terminal 1 1 0
  Cdd1   Pathogenicity locus 40 42 41
  Cdh1_DBD_1   Chromodomain helicase DNA-binding domain 1 5 7 7
  CDT1_C   DNA replication factor Cdt1 C-terminal domain 1 1 0
  CENP-B_N   CENP-B N-terminal DNA-binding domain 1 1 1
  CENP-C_mid   Centromere assembly component CENP-C middle DNMT3B-binding region 5 7 0
  CENP-L   Kinetochore complex Sim4 subunit Fta1 1 1 0
  CENP-N   Kinetochore protein CHL4 like 5 7 7
  CENP-O   Cenp-O kinetochore centromere component 1 1 0
  CENP-Q   CENP-Q, a CENPA-CAD centromere complex subunit 1 1 0
  CENP-S   CENP-S protein 2 30 1
  CENP-T_C   Centromere kinetochore component CENP-T histone fold 365 808 800
  CENP-X   CENP-S associating Centromere protein X 2 30 12
  Cep3   Centromere DNA-binding protein complex CBF3 subunit B 1 4 1
  CGI-121   Kinase binding protein CGI-121 1 1 1
  CHCH   CHCH domain 4 4 0
  Chordopox_A20R   Chordopoxvirus A20R protein 1 3 0
  Chordopox_E11   Chordopoxvirus E11 protein 1 2 0
  Chordopox_RPO7   Chordopoxvirus DNA-directed RNA polymerase 7 kDa polypeptide (RPO7) 3 3 0
  Chromo   Chromo (CHRromatin Organisation MOdifier) domain 5 14 3
  Chromo_2   Chromatin organization modifier domain 2 1 3 3
  Circo_capsid   Circovirus capsid protein 1 5 5
  Cir_N   N-terminal domain of CBF1 interacting co-repressor CIR 4 4 4
  Clp1   Pre-mRNA cleavage complex II protein Clp1 4 4 0
  CLP1_N   N-terminal beta-sandwich domain of polyadenylation factor 4 4 0
  CLP1_P   mRNA cleavage and polyadenylation factor CLP1 P-loop 4 4 4
  Cmr7A   CRISPR system CMR subunit Cmr7 1 7 166 26
  Cnd2   Condensin complex subunit 2 3 4 1
  Cnd3   Nuclear condensing complex subunits, C-term domain 3 3 1
  Cnl2_NKP2   Cnl2/NKP2 family protein 1 1 0
  cNMP_binding   Cyclic nucleotide-binding domain 34 70 7
  Coatomer_WDAD   Coatomer WD associated region 1 1 0
  CoA_binding   CoA binding domain 4 9 0
  COBRA1   Cofactor of BRCA1 (COBRA1) 1 3 0
  COE1_DBD   Transcription factor COE1 DNA-binding domain 3 9 8
  COE1_HLH   Transcription factor COE1 helix-loop-helix domain 1 2 0
  Cohesin_HEAT   HEAT repeat associated with sister chromatid cohesion 4 4 3
  Como_LCP   Large coat protein 2 2 1
  Como_SCP   Small coat protein 2 2 0
  Complex1_LYR   Complex 1 protein (LYR family) 3 3 2
  ComR_TPR   ComR tetratricopeptide 1 2 0
  Couple_hipA   HipA N-terminal domain 5 9 0
  CoV_ExoN   Coronavirus proofreading exoribonuclease 4 8 6
  CoV_Methyltr_2   Coronavirus 2'-O-methyltransferase 4 6 6
  CoV_NSP10   Coronavirus RNA synthesis protein NSP10 8 14 0
  CoV_NSP15_C   Coronavirus replicase NSP15, uridylate-specific endoribonuclease 3 14 14
  CoV_NSP15_M   Coronavirus replicase NSP15, middle domain 3 14 0
  CoV_NSP15_N   Coronavirus replicase NSP15, N-terminal oligomerisation 3 14 4
  CoV_NSP7   Coronavirus replicase NSP7 19 20 0
  CoV_NSP8   Coronavirus replicase NSP8 19 35 19
  CoV_NSP9   Coronavirus replicase NSP9 2 3 0
  CoV_nucleocap   Coronavirus nucleocapsid 2 2 2
  CoV_RPol_N   Coronavirus RNA-dependent RNA polymerase, N-terminal 19 20 0
  CP2   CP2 transcription factor 1 2 2
  CPL   CPL (NUC119) domain 1 1 1
  CPSF100_C   Cleavage and polyadenylation factor 2 C-terminal 1 1 0
  CPSF73-100_C   Pre-mRNA 3'-end-processing endonuclease polyadenylation factor C-term 1 1 0
  CPSF_A   CPSF A subunit region 33 35 0
  CR6_interact   Growth arrest and DNA-damage-inducible proteins-interacting protein 1 4 4 4
  Cren7   Chromatin protein Cren7 13 21 21
  Cript   Microtubule-associated protein CRIPT 1 1 0
  CRISPR_assoc   CRISPR associated protein 14 30 30
  CRISPR_Cas2   CRISPR associated protein Cas2 5 28 18
  CRISPR_Cas6   CRISPR-associated endoribonuclease Cas6 5 14 14
  CRISPR_Cas6_N   CRISPR Cas6 N-terminal domain 1 2 2
  CRISPR_Cas9_WED   CRISPR-Cas9 WED domain 10 11 11
  CRISPR_Cse1   CRISPR-associated protein Cse1 (CRISPR_cse1) 8 12 11
  CRISPR_Cse2   CRISPR-associated protein Cse2 (CRISPR_cse2) 8 24 10
  Crl   Sigma factor-binding transcriptional regulator Crl 2 2 0
  Cro   Cro 3 8 2
  CSD   'Cold-shock' DNA-binding domain 21 43 40
  CSD2   Cold shock domain 4 4 1
  Csm1_B   Csm1 subunit domain B 22 22 8
  Csm2_III-A   Csm2 Type III-A 18 32 21
  Csm4_C   CRISPR Csm4 C-terminal domain 18 18 18
  CsrA   Global regulator protein family 9 26 26
  CTC1   CST, telomere maintenance, complex subunit CTC1 1 3 1
  CTP-dep_RFKase   Domain of unknown function DUF120 1 2 0
  CtsR   CtsR N-terminal HTH domain 1 2 2
  CtsR_C   CtsR C-terminal dimerization domain 1 2 0
  Cucumo_2B   Cucumovirus protein 2B 2 8 8
  Cucumo_coat   Cucumovirus coat protein 1 3 0
  Cullin   Cullin family 2 3 0
  Cullin_Nedd8   Cullin protein neddylation domain 2 3 0
  CUT   CUT domain 4 6 5
  cwf21   cwf21 domain 7 7 2
  CwfJ_C_1   Protein similar to CwfJ C-terminus 1 3 3 3
  CwfJ_C_2   Protein similar to CwfJ C-terminus 2 3 3 0
  Cwf_Cwc_15   Cwf15/Cwc15 cell cycle control protein 24 45 25
  Cyclin_C_2   Cyclin C-terminal domain 2 2 0
  Cyclin_N   Cyclin, N-terminal domain 5 7 2
  C_LFY_FLO   DNA Binding Domain (C-terminal) Leafy/Floricaula 3 4 4
  DALR_1   DALR anticodon binding domain 6 12 10
  DALR_2   DALR domain 1 1 1
  DAP3   Mitochondrial ribosomal death-associated protein 3 4 4 4
  DAP_epimerase   Diaminopimelate epimerase 1 2 0
  DBD_Tnp_Hermes   Hermes transposase DNA-binding domain 5 9 9
  DBD_Tnp_Mut   MuDR family transposase 7 7 0
  DbpA   DbpA RNA binding domain 1 1 1
  DcpS_C   Scavenger mRNA decapping enzyme C-term binding 10 20 20
  DDE_2   Bacteriophage Mu transposase 1 6 4
  DDE_Tnp_1   Transposase DDE domain 5 5 5
  DDE_Tnp_1_7   Transposase IS4 2 4 4
  DdrB   DdrB-like protein 2 15 11
  DEAD   DEAD/DEAH box helicase 125 255 197
  DEAD_2   DEAD_2 32 33 5
  DEAD_assoc   DEAD/H associated 1 1 1
  Denso_VP4   Capsid protein VP4 1 1 1
  DHH   DHH family 5 6 5
  DHHA1   DHHA1 domain 7 10 9
  Dicer_dimer   Dicer dimerisation domain 2 2 0
  DIM1   Mitosis protein DIM1 7 7 5
  Dimer_Tnp_hAT   hAT family C-terminal dimerisation region 5 9 9
  Dis3l2_C_term   DIS3-like exonuclease 2 C terminal 1 2 2
  DKCLD   DKCLD (NUC011) domain 13 14 12
  DM   DM DNA binding domain 1 3 3
  Dna2   DNA replication factor Dna2 2 3 3
  DnaB   DnaB-like helicase N terminal domain 3 20 1
  DnaB_bind   DnaB-helicase binding domain of primase 4 7 0
  DnaB_C   DnaB-like helicase C terminal domain 11 65 64
  DnaJ   DnaJ domain 1 1 0
  DNAPKcs_CC5   DNA-PKcs, CC5 11 26 5
  DNApol3-delta_C   DNA polymerase III, delta subunit, C terminal 3 6 0
  DNApol_Exo   DNA mitochondrial polymerase exonuclease domain 5 5 4
  DNase_II   Deoxyribonuclease II 15 15 14
  DnaT   DnaT DNA-binding domain 2 10 10
  DNA_alkylation   DNA alkylation repair enzyme 22 24 24
  DNA_binding_1   6-O-methylguanine DNA methyltransferase, DNA binding domain 13 19 18
  DNA_gyraseA_C   DNA gyrase C-terminal domain, beta-propeller 1 12 8
  DNA_gyraseB   DNA gyrase B 8 17 4
  DNA_gyraseB_C   DNA gyrase B subunit, carboxyl terminus 62 155 141
  DNA_III_psi   DNA polymerase III psi subunit 1 2 0
  DNA_ligase_aden   NAD-dependent DNA ligase adenylation domain 2 2 2
  DNA_ligase_A_C   ATP dependent DNA ligase C terminal region 16 16 14
  DNA_ligase_A_M   ATP dependent DNA ligase domain 28 33 31
  DNA_ligase_A_N   DNA ligase N terminus 17 17 16
  DNA_ligase_IV   DNA ligase IV 2 4 0
  DNA_ligase_OB   NAD-dependent DNA ligase OB-fold domain 2 2 2
  DNA_ligase_OB_2   DNA ligase OB-like domain 7 10 10
  DNA_ligase_ZBD   NAD-dependent DNA ligase C4 zinc finger domain 2 2 2
  DNA_methylase   C-5 cytosine-specific DNA methylase 60 89 88
  DNA_mis_repair   DNA mismatch repair protein, C-terminal domain 2 2 0
  DNA_photolyase   DNA photolyase 13 23 22
  DNA_pol3_alpha   Bacterial DNA polymerase III alpha NTPase domain 8 15 14
  DNA_pol3_beta   DNA polymerase III beta subunit, N-terminal domain 4 8 3
  DNA_pol3_beta_2   DNA polymerase III beta subunit, central domain 4 8 3
  DNA_pol3_beta_3   DNA polymerase III beta subunit, C-terminal domain 4 8 0
  DNA_pol3_delta   DNA polymerase III, delta subunit 3 6 0
  DNA_pol3_delta2   DNA polymerase III, delta subunit 3 24 24
  DNA_pol3_delt_C   Processivity clamp loader gamma complex DNA pol III C-term 3 6 6
  DNA_pol3_finger   Bacterial DNA polymerase III alpha subunit finger domain 8 12 5
  DNA_pol3_gamma3   DNA polymerase III subunits gamma and tau domain III 3 18 0
  DNA_pol3_tau_5   DNA polymerase III tau subunit V interacting with alpha 1 1 0
  DNA_pol3_theta   DNA polymerase III, theta subunit 1 1 0
  DNA_pol_A   DNA polymerase family A 233 284 282
  DNA_pol_A_exo1   3'-5' exonuclease 19 20 19
  DNA_pol_B   DNA polymerase family B 177 236 230
  DNA_pol_B_2   DNA polymerase type B, organellar and viral 6 15 15
  DNA_pol_B_exo1   DNA polymerase family B, exonuclease domain 178 283 216
  DNA_pol_B_palm   DNA polymerase beta palm 534 581 570
  DNA_pol_B_thumb   DNA polymerase beta thumb 548 613 470
  DNA_pol_delta_4   DNA polymerase delta, subunit 4 5 5 0
  DNA_pol_D_N   DNA polymerase delta subunit OB-fold domain 8 8 0
  DNA_pol_E_B   DNA polymerase alpha/epsilon subunit B 13 13 0
  DNA_pol_lambd_f   Fingers domain of DNA polymerase lambda 535 582 573
  DNA_pol_P_Exo   DNA polymerase nu pseudo-exo 4 4 0
  DNA_PPF   DNA polymerase processivity factor 4 15 0
  DNA_primase_lrg   Eukaryotic and archaeal DNA primase, large subunit 2 4 4
  DNA_primase_S   DNA primase small subunit 8 16 14
  DNA_processg_A   DNA recombination-mediator protein A 1 2 2
  DNA_RNApol_7kD   DNA directed RNA polymerase, 7 kDa subunit 212 214 0
  DNA_topoisoIV   DNA gyrase/topoisomerase IV, subunit A 84 202 195
  DOT1   Histone methylation protein DOT1 11 12 0
  DpnI   Dam-replacing family 2 3 1
  DpnI_C   Dam-replacing HTH domain 2 3 3
  Dpy-30   Dpy-30 motif 4 8 0
  DRMBL   DNA repair metallo-beta-lactamase 1 1 1
  DSHCT   DSHCT (NUC185) domain 4 5 5
  dsRBD2   Double-stranded RNA binding domain 2 1 3 3
  dsrm   Double-stranded RNA binding motif 38 72 64
  DSS1_SEM1   DSS1/SEM1 family 1 1 0
  DtxR   Diphteria toxin repressor SH3 domain 2 12 0
  DUF1115   Protein of unknown function (DUF1115) 8 10 7
  DUF1168   Protein of unknown function (DUF1168) 1 1 1
  DUF150   RimP N-terminal domain 4 4 2
  DUF150_C   RimP C-terminal SH3 domain 4 4 2
  DUF1706   Protein of unknown function (DUF1706) 1 2 2
  DUF1713   Mitochondrial domain of unknown function (DUF1713) 8 8 8
  DUF1726   Domain of unknown function (DUF1726) 1 2 0
  DUF1730   Domain of unknown function (DUF1730) 3 8 0
  DUF1743   Domain of unknown function (DUF1743) 2 2 2
  DUF1744   Domain of unknown function (DUF1744) 1 1 0
  DUF1778   Protein of unknown function (DUF1778) 2 6 6
  DUF1874   Domain of unknown function (DUF1874) 1 7 7
  DUF1887   Domain of unknown function (DUF1887) 4 12 12
  DUF1951   Domain of unknown function (DUF1951) 5 6 6
  DUF1998   Domain of unknown function (DUF1998) 2 4 2
  DUF2100   Uncharacterized protein conserved in archaea (DUF2100) 1 2 1
  DUF2209   Uncharacterized protein conserved in archaea (DUF2209) 3 3 0
  DUF2228   Uncharacterised conserved protein (DUF2228) 3 6 1
  DUF2258   Uncharacterized protein conserved in archaea (DUF2258) 1 8 8
  DUF2312   Uncharacterized protein conserved in bacteria (DUF2312) 2 8 7
  DUF2423   Protein of unknown function (DUF2423) 1 1 1
  DUF2815   Protein of unknown function (DUF2815) 1 1 1
  DUF3182   Protein of unknown function (DUF3182) 3 3 3
  DUF3378   Domain of unknown function (DUF3378) 1 1 1
  DUF3381   Domain of unknown function (DUF3381) 1 1 0
  DUF3418   Domain of unknown function (DUF3418) 1 4 0
  DUF3591   Protein of unknown function (DUF3591) 10 12 12
  DUF3692   CRISPR-associated protein 8 8 0
  DUF382   Domain of unknown function (DUF382) 12 19 11
  DUF3912   Protein of unknown function (DUF3912) 2 2 0
  DUF4093   Domain of unknown function (DUF4093) 1 2 2
  DUF4152   Protein of unknown function (DUF4152) 5 15 15
  DUF4217   Domain of unknown function (DUF4217) 6 6 1
  DUF445   Protein of unknown function (DUF445) 1 1 1
  DUF4918   Domain of unknown function (DUF4918) 3 6 6
  DUF5051   3' exoribonuclease, RNase T-like 1 2 1
  DUF5323   Family of unknown function (DUF5323) 4 4 4
  DUF6120   Family of unknown function (DUF6120) 2 3 3
  DUF615   Protein of unknown function (DUF615) 1 1 1
  DUF727   Protein of unknown function (DUF727) 1 1 1
  DUF790   Protein of unknown function (DUF790) 1 2 2
  DUF86   Protein of unknown function DUF86 1 3 3
  Dus   Dihydrouridine synthase (Dus) 4 8 8
  E2F_TDP   E2F/DP family winged-helix DNA-binding domain 2 4 4
  EAF   RNA polymerase II transcription elongation factor 2 2 0
  EAL   EAL domain 3 8 8
  Ebola_NP   Ebola nucleoprotein 2 2 2
  Ebp2   Eukaryotic rRNA processing protein EBP2 4 4 0
  EBV-NA1   Epstein Barr virus nuclear antigen-1, DNA-binding domain 3 12 12
  Eco57I   Eco57I restriction-modification methylase 9 16 16
  EcoR124_C   Type I restriction and modification enzyme - subunit R C terminal 1 1 0
  EcoRI   Restriction endonuclease EcoRI 7 7 7
  EcoRII-C   EcoRII C terminal 4 11 11
  EcoRII-N   Restriction endonuclease EcoRII, N-terminal 1 1 1
  ECR1_N   Exosome complex exonuclease RRP4 N-terminal region 12 19 0
  EFG_C   Elongation factor G C-terminus 41 41 6
  EFG_III   Elongation Factor G, domain III 21 21 1
  EFG_IV   Elongation factor G, domain IV 38 38 0
  EFTUD2   116 kDa U5 small nuclear ribonucleoprotein component N-terminus 12 12 3
  EF_TS   Elongation factor TS 9 9 0
  eIF-1a   Translation initiation factor 1A / IF-1 34 34 33
  eIF-3c_N   Eukaryotic translation initiation factor 3 subunit 8 N-terminus 5 7 7
  eIF-3_zeta   Eukaryotic translation initiation factor 3 subunit 7 (eIF-3) 1 1 0
  eIF-5_eIF-2B   Domain found in IF2B/IF5 8 8 5
  eIF-6   eIF-6 family 10 10 5
  eIF2A   Eukaryotic translation initiation factor eIF2A 5 5 3
  eIF2_C   Initiation factor eIF2 gamma, C terminal 13 13 4
  eIF3g   Eukaryotic translation initiation factor 3 subunit G 5 5 4
  eIF3_subunit   Translation initiation factor eIF3 subunit 3 6 5
  EIF_2_alpha   Eukaryotic translation initiation factor 2 alpha subunit 14 14 7
  Elf1   Transcription elongation factor Elf1 like 6 6 0
  ELL   RNA polymerase II elongation factor ELL 2 2 0
  EMG1   EMG1/NEP1 methyltransferase 4 8 6
  EndIII_4Fe-2S   Iron-sulfur binding domain of endonuclease III 2 2 0
  Endonuc-BglII   Restriction endonuclease BglII 2 4 4
  Endonuc-BsobI   Restriction endonuclease BsobI 1 2 2
  Endonuc-dimeris   T4 recombination endonuclease VII, dimerisation 2 4 4
  Endonuc-EcoRV   Restriction endonuclease EcoRV 29 59 59
  Endonuc-FokI_C   Restriction endonuclease FokI, C terminal 1 1 1
  Endonuc-HincII   Restriction endonuclease HincII 18 49 49
  Endonuc-MspI   Restriction endonuclease MspI 2 4 4
  Endonuc-PvuII   Restriction endonuclease PvuII 5 10 10
  Endonuclease_1   Endonuclease I 2 6 6
  Endonuclease_5   Endonuclease V 17 40 38
  Endonuclease_7   Recombination endonuclease VII 4 8 8
  Endonuclease_NS   DNA/RNA non-specific endonuclease 8 19 15
  Endonuc_BglI   Restriction endonuclease BglI 1 1 1
  EnY2   Transcription factor e(y)2 2 5 2
  ERCC3_RAD25_C   ERCC3/RAD25/XPB C-terminal helicase 29 29 26
  ERCC4   ERCC4 domain 7 20 9
  eRF1_1   eRF1 domain 1 5 5 5
  eRF1_2   eRF1 domain 2 5 5 3
  eRF1_3   eRF1 domain 3 5 5 3
  Ets   Ets-domain 48 84 84
  Ets1_N_flank   Ets1 N-terminal flanking region of Ets domain 2 4 0
  EVE   EVE domain 1 2 2
  Exc   Excisionase-like protein 7 14 13
  Exo5   Exonuclease V - a 5' deoxyribonuclease 3 9 8
  Exog_C   Endo/exonuclease (EXOG) C-terminal domain 5 12 12
  Exonuc_V_gamma   Exodeoxyribonuclease V, gamma subunit 11 13 2
  Exonuc_X-T_C   Exonuclease C-terminal 6 18 18
  EXOSC1   Exosome component EXOSC1/CSL4 11 21 1
  Exo_endo_phos   Endonuclease/Exonuclease/phosphatase family 77 162 128
  Exportin-5   Exportin-5 family 1 2 2
  Exportin-T   Exportin-T 1 2 2
  EZH2_WD-Binding   WD repeat binding protein EZH2 1 1 0
  FadR_C   FadR C-terminal domain 3 8 0
  FAD_binding_7   FAD binding domain of DNA photolyase 11 19 19
  FancD2   Fanconi anaemia protein FancD2 nuclease 3 8 2
  FANCI_HD1   FANCI helical domain 1 3 3 0
  FANCI_HD2   FANCI helical domain 2 3 3 0
  FANCI_S1   FANCI solenoid 1 3 3 0
  FANCI_S1-cap   FANCI solenoid 1 cap 3 3 0
  FANCI_S2   FANCI solenoid 2 3 6 0
  FANCI_S3   FANCI solenoid 3 3 3 0
  FANCI_S4   FANCI solenoid 4 3 3 2
  FANC_SAP   Fanconi anemia-associated nuclease SAP domain 5 9 6
  Fapy_DNA_glyco   Formamidopyrimidine-DNA glycosylase N-terminal domain 101 152 152
  FAT   FAT domain 11 13 0
  FATC   FATC domain 11 13 0
  FCD   FCD domain 4 11 0
  Fcf1   Fcf1 1 1 0
  FDX-ACB   Ferredoxin-fold anticodon binding domain 7 9 9
  FemAB   FemAB family 1 2 1
  FeoB_N   Ferrous iron transport protein B 1 1 0
  Fer4   4Fe-4S binding domain 7 7 5
  Fer4_16   4Fe-4S double cluster binding domain 3 8 4
  Fe_dep_repress   Iron dependent repressor, N-terminal DNA binding domain 6 28 28
  Fe_dep_repr_C   Iron dependent repressor, metal binding and dimerisation domain 6 28 0
  FF   FF domain 1 2 0
  FHA   FHA domain 6 6 0
  Fibrillarin   Fibrillarin 10 29 16
  Filamin   Filamin/ABP280 repeat 2 2 0
  Filo_VP35   Filoviridae VP35 6 19 17
  FKBP_C   FKBP-type peptidyl-prolyl cis-trans isomerase 1 2 0
  Flavi_DEAD   Flavivirus DEAD domain 16 34 31
  Flavi_NS5   Flavivirus RNA-directed RNA polymerase 1 1 0
  Flexi_CP   Viral coat protein 4 40 40
  Flp_C   Recombinase Flp protein 3 12 12
  Flp_N   Recombinase Flp protein N-terminus 3 12 12
  Flu_NP   Influenza virus nucleoprotein 1 50 0
  Flu_NS1   Influenza non-structural protein (NS1) 4 8 8
  Flu_PA   Influenza RNA-dependent RNA polymerase subunit PA 45 51 49
  Flu_PB1   Influenza RNA-dependent RNA polymerase subunit PB1 41 58 48
  Flu_PB2   Influenza RNA-dependent RNA polymerase subunit PB2 40 47 31
  FokI_C   Restriction endonuclease FokI, catalytic domain 1 1 1
  FokI_N   Restriction endonuclease FokI, recognition domain 1 1 1
  Forkhead   Forkhead domain 25 50 50
  Formyl_trans_C   Formyl transferase, C-terminal domain 1 2 2
  Formyl_trans_N   Formyl transferase 1 2 2
  FOXP-CC   FOXP coiled-coil domain 12 13 12
  FRG1   FRG1-like domain 2 2 1
  FTO_CTD   FTO C-terminal domain 1 4 4
  FTO_NTD   FTO catalytic domain 1 4 4
  FtsJ   FtsJ-like methyltransferase 4 8 6
  FtsK_alpha   FtsK alpha domain 3 18 1
  FtsK_gamma   Ftsk gamma domain 1 6 6
  FtsK_SpoIIIE   FtsK/SpoIIIE family 3 19 8
  FUR   Ferric uptake regulator family 5 14 14
  FXa_inhibition   Coagulation Factor Xa inhibitory site 2 2 0
  FYVE_2   FYVE-type zinc finger 1 1 0
  G-gamma   GGL domain 1 1 0
  G-patch_2   G-patch domain 1 1 0
  G10   G10 protein 25 25 24
  GAD   GAD domain 6 12 2
  GAGA   GAGA factor 2 2 2
  Gag_spuma   Spumavirus gag protein 1 1 0
  Gal4_dimer   Gal4-like dimerisation domain 2 4 4
  Gar1   Gar1/Naf1 RNA binding region 5 6 0
  GATA   GATA zinc finger 16 29 26
  GatB_N   GatB/GatE catalytic domain 4 9 8
  GatB_Yqey   GatB domain 3 7 5
  GatD_N   GatD N-terminal domain 1 2 0
  GbpC   Glucan-binding protein C 1 1 1
  Gcd10p   Gcd10p family 3 6 6
  GCD14   tRNA methyltransferase complex GCD14 subunit 3 4 4
  GCM   GCM motif protein 1 1 1
  GCN5L1   GCN5-like protein 1 (GCN5L1) 1 1 0
  GcrA   GcrA cell cycle regulator 3 10 6
  Gemini_AL1   Geminivirus Rep catalytic domain 2 3 3
  Gemini_coat   Geminivirus coat protein/nuclear export factor BR1 family 1 11 11
  GEN1_C   Holliday junction resolvase Gen1 C-terminal domain 5 6 1
  GerE   Bacterial regulatory proteins, luxR family 14 45 42
  GFP   Green fluorescent protein 2 4 0
  GIIM   Group II intron, maturase-specific domain 4 6 6
  GIY-YIG   GIY-YIG catalytic domain 2 3 3
  Glu-tRNAGln   Glu-tRNAGln amidotransferase C subunit 3 7 0
  Gly-zipper_YMGG   YMGG-like Gly-zipper 1 1 0
  GNAT_acetyltr_2   GNAT acetyltransferase 2 1 4 0
  GntR   Bacterial regulatory proteins, gntR family 14 39 35
  gp45-slide_C   gp45 sliding clamp, C terminal 4 15 3
  GreA_GreB   Transcription elongation factor, GreA/GreB, C-term 4 9 0
  GreA_GreB_N   Transcription elongation factor, N-terminal 4 9 1
  GST_C   Glutathione S-transferase, C-terminal domain 4 6 0
  GST_N   Glutathione S-transferase, N-terminal domain 2 4 0
  GST_N_3   Glutathione S-transferase, N-terminal domain 2 4 0
  Gti1_Pac2   Gti1/Pac2 family 3 4 4
  GTP-bdg_M   GTP-binding GTPase Middle Region 2 2 1
  GTP-bdg_N   GTP-binding GTPase N-terminal 2 2 0
  GTP1_OBG   GTP1/OBG 4 4 4
  GTP_EFTU   Elongation factor Tu GTP binding domain 83 87 47
  GTP_EFTU_D2   Elongation factor Tu domain 2 82 86 30
  GTP_EFTU_D3   Elongation factor Tu C-terminal domain 23 27 13
  GTP_EFTU_D4   Elongation factor Tu domain 4 2 2 2
  GyrB_insert   DNA gyrase B subunit insert domain 3 6 0
  GyrI-like   GyrI-like small molecule binding domain 21 31 0
  H2TH   Formamidopyrimidine-DNA glycosylase H2TH domain 101 152 143
  HA2   Helicase associated domain (HA2) 38 63 48
  HAND   HAND 1 1 0
  Hanta_G1   Hantavirus glycoprotein G1 2 5 5
  Hanta_nucleocap   Hantavirus nucleocapsid protein 1 1 1
  HAT   HAT (Half-A-TPR) repeat 27 38 4
  HATPase_c   Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 8 17 0
  HATPase_c_3   Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 2 2 0
  HAUS2   HAUS augmin-like complex subunit 2 4 4 0
  HBB   Helical and beta-bridge domain 30 30 3
  HD   HD domain 21 39 11
  HDA2-3   Class II histone deacetylase complex subunits 2 and 3 1 2 1
  HD_6   HD domain 5 33 33
  HD_assoc   Phosphohydrolase-associated domain 1 6 0
  HEAT_2   HEAT repeats 6 11 6
  Helicase_C   Helicase conserved C-terminal domain 203 339 281
  Helicase_C_2   Helicase C-terminal domain 32 33 7
  Helicase_C_3   Helicase conserved C-terminal domain 19 38 0
  Helicase_PWI   N-terminal helicase PWI domain 3 3 0
  Helicase_RecD   Helicase 1 4 0
  Hen1_Lam_C   Hen1 La-motif C-terminal domain 1 2 2
  Herpes_ICP4_N   Herpesvirus ICP4-like protein N-terminal region 2 6 6
  Herpes_UL69   Herpesvirus transcriptional regulator family 1 2 2
  HetR_C   Heterocyst differentiation regulator C-terminal Hood domain 5 12 0
  HflX_C   HflX C-terminal domain 2 2 1
  Hfq   Hfq protein 20 147 119
  HGTP_anticodon   Anticodon binding domain 15 31 19
  HHH   Helix-hairpin-helix motif 18 19 19
  HhH-GPD   HhH-GPD superfamily base excision DNA repair protein 83 113 113
  HHH_2   Helix-hairpin-helix motif 3 3 3
  HHH_4   Helix-hairpin-helix containing domain 2 3 3
  HHH_5   Helix-hairpin-helix domain 34 65 29
  HHH_6   Helix-hairpin-helix motif 8 12 8
  HHH_7   Helix-hairpin-helix motif 2 2 0
  HHH_8   Helix-hairpin-helix domain 525 565 469
  HHH_9   HHH domain 2 2 0
  HigB-like_toxin   RelE-like toxin of type II toxin-antitoxin system HigB 1 1 1
  HIN   HIN-200/IF120x domain 10 29 26
  HipA_C   HipA-like C-terminal domain 5 9 4
  HIRAN   HIRAN domain 4 8 8
  Histone   Core histone H2A/H2B/H3/H4 373 2436 2392
  Histone_H2A_C   C-terminus of histone H2A 362 799 22
  Histone_HNS   H-NS histone family 1 1 1
  Hist_deacetyl   Histone deacetylase domain 1 2 0
  His_Me_b4a2   His-Me finger endonuclease beta4-alpha2 domain 2 4 4
  HIT   HIT domain 4 10 10
  Hjc   Archaeal holliday junction resolvase (hjc) 3 6 4
  HLH   Helix-loop-helix DNA-binding domain 26 80 74
  HMG_box   HMG (high mobility group) box 47 88 85
  HMG_box_2   HMG-box domain 18 34 34
  HMMR_N   Hyaluronan mediated motility receptor N-terminal 1 1 0
  HNF-1_N   Hepatocyte nuclear factor 1 (HNF-1), N terminus 2 4 4
  HNH_2   HNH endonuclease 3 4 0
  HNH_3   HNH endonuclease 1 1 1
  HNH_4   HNH endonuclease 45 52 7
  Homeobox_KN   Homeobox KN domain 7 14 13
  Homeodomain   Homeodomain 91 200 199
  Hom_end   Homing endonuclease 2 4 4
  Hom_end_hint   Hom_end-associated Hint 2 2 2
  HORMA   HORMA domain 1 2 0
  Hormone_recep   Ligand-binding domain of nuclear hormone receptor 7 18 0
  HPD   Homeo-prospero domain 1 1 1
  HRDC   HRDC domain 8 14 2
  HSA   HSA 8 8 0
  HsdM_N   HsdM N-terminal domain 3 6 0
  HSDR_N   Type I restriction enzyme R protein N terminus (HSDR_N) 1 1 0
  HSF_DNA-bind   HSF-type DNA-binding 14 36 34
  HTH_1   Bacterial regulatory helix-turn-helix protein, lysR family 4 18 18
  HTH_17   Helix-turn-helix domain 2 13 13
  HTH_18   Helix-turn-helix domain 4 7 7
  HTH_19   Helix-turn-helix domain 3 8 8
  HTH_24   Winged helix-turn-helix DNA-binding 6 15 15
  HTH_27   Winged helix DNA-binding domain 5 28 26
  HTH_3   Helix-turn-helix 55 150 144
  HTH_37   Helix-turn-helix domain 1 2 2
  HTH_44   Helix-turn-helix DNA-binding domain of SPT6 2 2 0
  HTH_48   HTH domain in Mos1 transposase 5 11 11
  HTH_5   Bacterial regulatory protein, arsR family 2 8 8
  HTH_53   Zap helix turn helix N-terminal domain 2 2 2
  HTH_56   Cch helix turn helix domain 1 8 8
  HTH_7   Helix-turn-helix domain of resolvase 16 29 29
  HTH_8   Bacterial regulatory protein, Fis family 25 50 50
  HTH_9   RNA polymerase III subunit RPC82 helix-turn-helix domain 17 17 0
  HTH_AraC   Bacterial regulatory helix-turn-helix proteins, AraC family 1 1 1
  HTH_Crp_2   Crp-like helix-turn-helix domain 35 72 72
  HTH_IclR   IclR helix-turn-helix domain 1 4 4
  HTH_Mga   M protein trans-acting positive regulator (MGA) HTH domain 1 1 0
  HTH_ParB   HTH domain found in ParB protein 4 12 10
  HTH_Tnp_Mu_1   Mu DNA-binding domain 2 5 5
  HTH_Tnp_Mu_2   Mu DNA binding, I gamma subdomain 1 4 4
  HTH_Tnp_Tc3_1   Tc3 transposase 2 2 2
  HTH_Tnp_Tc5   Tc5 transposase DNA-binding domain 1 1 1
  HutP   HutP 4 9 9
  HVO_2753_ZBP   Small zinc finger protein HVO_2753-like, Zn-binding pocket 7 8 5
  HVSL   Uncharacterised conserved protein 2 2 2
  HxlR   HxlR-like helix-turn-helix 2 8 8
  HypA   Hydrogenase/urease nickel incorporation, metallochaperone, hypA 1 1 0
  I-set   Immunoglobulin I-set domain 1 1 1
  IBD   Transcription-initiator DNA-binding domain IBD 2 7 5
  IBN_N   Importin-beta N-terminal domain 1 2 0
  IclR   Bacterial transcriptional regulator 1 4 0
  IF-2   Translation-initiation factor 2 6 6 2
  IF3_C   Translation initiation factor IF-3, C-terminal domain 14 14 13
  IF3_N   Translation initiation factor IF-3, N-terminal domain 13 13 13
  IgG_binding_B   B domain 1 1 0
  Ig_3   Immunoglobulin domain 2 4 4
  IL1   Interleukin-1 / 18 1 1 1
  IL6   Interleukin-6/G-CSF/MGF family 2 3 3
  Img2   Mitochondrial large subunit ribosomal protein (Img2) 5 5 5
  IMS   impB/mucB/samB family 405 518 515
  IMS_C   impB/mucB/samB family C-terminal domain 398 509 509
  IMS_HHH   IMS family HHH motif 185 287 282
  Inositol_P   Inositol monophosphatase family 2 4 2
  Integrase_DNA   DNA binding domain of tn916 integrase 2 2 2
  Integrase_H2C2   Integrase zinc binding domain 51 52 52
  Integrase_Zn   Integrase Zinc binding domain 21 102 28
  Intron_maturas2   Type II intron maturase 4 4 4
  Ints3_N   Integrator complex subunit 3 N-terminal 2 2 0
  IN_DBD_C   Integrase DNA binding domain 21 147 85
  IPPT   IPP transferase 7 26 26
  IRF   Interferon regulatory factor transcription factor 9 28 27
  IstB_IS21   IstB-like ATP binding protein 1 6 6
  Isy1   Isy1-like splicing family 9 9 7
  JAB   JAB1/Mov34/MPN/PAD-1 ubiquitin protease 10 10 0
  KH_1   KH domain 41 86 67
  KH_2   KH domain 225 226 57
  KH_5   NusA-like KH domain 17 19 9
  KH_6   KH domain 12 22 0
  KH_8   Krr1 KH1 domain 14 15 13
  KH_dom-like   KH-domain-like of EngA bacterial GTPase enzymes, C-terminal 1 1 1
  KicB   MukF winged-helix domain 4 4 0
  KilA-N   KilA-N domain 1 2 2
  Kin17_mid   Domain of Kin17 curved DNA-binding protein 1 1 0
  KN17_SH3   KN17 SH3-like C-terminal domain 1 1 0
  KORA   TrfB plasmid transcriptional repressor 3 12 12
  KorB   KorB domain 1 4 4
  KOW   KOW motif 270 306 219
  KTI12   Chromatin associated protein KTI12 4 7 7
  Ku   Ku70/Ku80 beta-barrel domain 14 48 46
  Ku_C   Ku70/Ku80 C-terminal arm 14 48 11
  Ku_N   Ku70/Ku80 N-terminal alpha/beta domain 14 48 24
  Ku_PK_bind   Ku C terminal domain like 3 4 0
  L51_S25_CI-B8   Mitochondrial ribosomal protein L51 / S25 / CI-B8 domain 8 8 8
  La   La domain 9 15 14
  LacI   Bacterial regulatory proteins, lacI family 41 74 70
  Lactamase_B   Metallo-beta-lactamase superfamily 5 11 11
  Lactamase_B_2   Beta-lactamase superfamily domain 7 14 11
  Lactamase_B_6   Metallo-beta-lactamase superfamily domain 1 1 0
  LAG1-DNAbind   LAG1, DNA binding 15 24 22
  LAGLIDADG_1   LAGLIDADG endonuclease 88 239 237
  LAGLIDADG_2   LAGLIDADG DNA endonuclease family 7 9 9
  LAGLIDADG_3   LAGLIDADG-like domain 19 111 111
  Ldh_1_C   lactate/malate dehydrogenase, alpha/beta C-terminal domain 3 10 5
  Ldh_1_N   lactate/malate dehydrogenase, NAD binding domain 3 10 10
  Lectin_legB   Legume lectin domain 7 28 4
  Leo1   Leo1-like protein 1 2 0
  LepA_C   GTP-binding protein LepA C-terminus 1 1 1
  Leucyl-specific   Leucine-tRNA synthetase-specific domain 3 6 0
  Levi_coat   Levivirus coat protein 31 97 92
  LexA_DNA_bind   LexA DNA binding domain 3 6 4
  LID   LIM interaction domain (LID) 1 1 0
  LIM   LIM domain 2 3 1
  Linker_histone   linker histone H1 and H5 family 14 19 19
  LisH_TPL   LisH-like dimerisation domain 1 1 1
  LRR_12   Leucine-rich repeat 21 39 4
  LRR_4   Leucine Rich repeats (2 copies) 15 28 1
  LRR_8   Leucine rich repeat 28 279 114
  LRR_9   Leucine-rich repeat 31 33 13
  LSM   LSM domain 56 770 588
  Lsm_interact   Lsm interaction motif 1 1 0
  LTV   Low temperature viability protein 3 3 1
  LUC7   LUC7 N_terminus 33 37 31
  Lys   C-type lysozyme/alpha-lactalbumin family 2 7 7
  LysR_substrate   LysR substrate binding domain 1 4 0
  LytTR   LytTr DNA-binding domain 6 12 11
  L_protein_N   L protein N-terminus 4 4 0
  MA3   MA3 domain 20 20 2
  Mab-21   Mab-21 protein 29 44 37
  Macro   Macro domain 2 8 4
  MafB19-deam   MafB19-like deaminase 2 6 5
  Mago_nashi   Mago nashi protein 7 11 0
  Mak16   Mak16 protein C-terminal region 6 6 3
  MamL-1   MamL-1 domain 3 4 0
  MarR   MarR family 13 58 58
  MarR_2   MarR family 9 35 27
  MAT1   CDK-activating kinase assembly factor MAT1 17 17 0
  MatP   MatP N-terminal domain 7 20 20
  MatP_C   MatP C-terminal ribbon-helix-helix domain 7 20 20
  MazE_antitoxin   Antidote-toxin recognition MazE, bacterial antitoxin 5 18 18
  MBD   Methyl-CpG binding domain 30 57 57
  MBF1   Multiprotein bridging factor 1 2 2 2
  MC1   Non-histone chromosomal protein MC1 1 1 1
  MCM   MCM P-loop domain 16 108 66
  MCM6_C   MCM6 C-terminal winged-helix domain 3 3 0
  MCM_lid   MCM AAA-lid domain 16 108 0
  MCM_N   MCM N-terminal domain 16 114 0
  MCM_OB   MCM OB domain 16 114 18
  mCpol   minimal CRISPR polymerase domain 10 10 5
  Med10   Transcription factor subunit Med10 of Mediator complex 2 2 0
  Med11   Mediator complex protein 4 4 0
  Med12-LCEWAV   Eukaryotic Mediator 12 subunit domain 2 2 2
  Med14   Mediator complex subunit MED14 2 2 0
  Med17   Subunit 17 of Mediator complex 3 3 0
  Med18   Med18 protein 4 5 1
  Med19   Mediator of RNA pol II transcription subunit 19 1 1 0
  Med20   TATA-binding related factor (TRF) of subunit 20 of Mediator complex 4 4 0
  Med21   Subunit 21 of Mediator complex 3 4 0
  Med22   Surfeit locus protein 5 subunit 22 of Mediator complex 4 4 0
  Med27   Mediator complex subunit 27 1 1 0
  Med28   Mediator complex subunit 28 1 1 0
  Med30   Mediator complex subunit 30 1 1 0
  Med31   SOH1 3 3 1
  Med4   Vitamin-D-receptor interacting Mediator subunit 4 3 3 0
  Med6   MED6 mediator sub complex component 4 4 0
  Med7   MED7 protein 3 3 0
  Med8   Mediator of RNA polymerase II transcription complex subunit 8 4 5 0
  Med9   RNA polymerase II transcription mediator complex subunit 9 3 4 0
  MEF2_binding   MEF2 binding 1 1 0
  MerR   MerR family regulatory protein 1 1 1
  MerR-DNA-bind   MerR, DNA binding 1 1 1
  MerR_1   MerR HTH family regulatory protein 39 84 83
  Metallophos   Calcineurin-like phosphoesterase 11 41 25
  Methylase_S   Type I restriction modification DNA specificity domain 3 8 6
  MethyltransfD12   D12 class N6 adenine-specific DNA methyltransferase 15 26 25
  Methyltransf_10   RNA methyltransferase 2 2 2
  Methyltransf_11   Methyltransferase domain 1 1 1
  Methyltransf_1N   6-O-methylguanine DNA methyltransferase, ribonuclease-like domain 4 9 0
  Methyltransf_3   O-methyltransferase 1 1 1
  Methyltransf_31   Methyltransferase domain 1 2 2
  Methyltransf_4   Putative methyltransferase 1 1 1
  Methyltr_RsmB-F   16S rRNA methyltransferase RsmB/F 5 8 8
  Methyltr_RsmF_N   N-terminal domain of 16S rRNA methyltransferase RsmF 1 1 0
  MetJ   Met Apo-repressor, MetJ 6 22 22
  Met_10   Met-10+ like-protein 4 6 6
  MFAP1   Microfibril-associated/Pre-mRNA processing 3 3 2
  MH1   MH1 domain 19 35 33
  Microvir_J   Microvirus J protein 2 2 2
  MIF4G   MIF4G domain 4 4 1
  MIF4G_like   MIF4G like 1 1 0
  MIF4G_like_2   MIF4G like 1 1 0
  Mitoc_L55   Mitochondrial ribosomal protein L55 4 4 3
  Mitoc_mL59   Mitochondrial ribosomal protein mL59 4 4 4
  MMR_HSR1   50S ribosome-binding GTPase 13 15 10
  MMR_HSR1_Xtn   C-terminal region of MMR_HSR1 domain 5 6 0
  MMS1_N   Mono-functional DNA-alkylating methyl methanesulfonate N-term 33 35 0
  MobA_MobL   MobA/MobL family 1 1 1
  Mob_Pre   Plasmid recombination enzyme 6 7 7
  MogR_DNAbind   DNA binding domain of the motility gene repressor (MogR) 1 2 2
  MotA_activ   Transcription factor MotA, activation domain 1 1 0
  MotCF   Bacteriophage T4 MotA, C-terminal 2 7 7
  Mpp10   Mpp10 protein 1 1 0
  MPP6   M-phase phosphoprotein 6 3 3 0
  MqsA_antitoxin   Antitoxin component of bacterial toxin-antitoxin system, MqsA 1 2 2
  MrcB_N   MrcB-like, N-terminal domain 6 12 12
  MRP   Mitochondrial RNA binding protein MRP 1 2 2
  MRP-63   Mitochondrial ribosome protein 63 4 4 4
  MRP-L27   Mitochondrial ribosomal protein L27 4 4 4
  MRP-L28   Mitochondrial ribosomal protein L28 4 4 4
  MRP-L46   39S mitochondrial ribosomal protein L46 3 3 3
  MRP-L47   Mitochondrial 39-S ribosomal protein L47 (MRP-L47) 6 6 4
  MRP-L51   Mitochondrial ribosomal subunit 4 4 4
  MRP-S22   Mitochondrial 28S ribosomal protein S22 4 4 0
  MRP-S23   Mitochondrial ribosomal protein S23 4 4 4
  MRP-S24   Mitochondrial ribosome subunit S24 4 4 4
  MRP-S26   Mitochondrial ribosome subunit S26 4 4 4
  MRP-S27   Mitochondrial 28S ribosomal protein S27 3 3 3
  MRP-S28   Mitochondrial ribosomal subunit protein 4 4 4
  MRP-S31   Mitochondrial 28S ribosomal protein S31 4 4 0
  MRP-S32   Mitochondrial 28S ribosomal protein S32 4 7 5
  MRP-S33   Mitochondrial ribosomal subunit S27 4 4 4
  MRP-S34   Mitochondrial 28S ribosomal protein S34 4 4 4
  MRP-S35   Mitochondrial ribosomal protein MRP-S35 4 4 4
  MRPL52   Mitoribosomal protein mL52 4 4 4
  MRP_L53   39S ribosomal protein L53/MRP-L53 4 4 4
  Mrr_cat   Restriction endonuclease 1 4 0
  Mrr_cat_2   Restriction endonuclease 1 2 0
  MSL2-CXC   CXC domain of E3 ubiquitin-protein ligase MSL2 2 6 6
  mTERF   mTERF 9 10 10
  MTS   Methyltransferase small domain 2 3 2
  Mu-like_Pro   Mu-like prophage I protein 1 1 0
  Mu-transpos_C   Mu transposase, C-terminal 1 4 2
  MukB   MukB N-terminal 4 8 8
  MukB_hinge   MukB hinge domain 3 6 0
  MukE   MukE-like family 4 8 7
  MukF_C   MukF C-terminal domain 4 4 4
  MukF_M   MukF middle domain 4 4 0
  MutH   DNA mismatch repair enzyme MutH 2 3 3
  MutS_I   MutS domain I 28 55 44
  MutS_II   MutS domain II 30 60 0
  MutS_III   MutS domain III 30 60 58
  MutS_IV   MutS family domain IV 30 56 47
  MutS_V   MutS domain V 30 60 0
  MvaI_BcnI   MvaI/BcnI restriction endonuclease family 4 10 10
  Myb_Cef   pre-mRNA splicing factor component 11 11 8
  Myb_DNA-binding   Myb-like DNA-binding domain 37 77 50
  Myb_DNA-bind_5   Myb/SANT-like DNA-binding domain 1 2 2
  Myb_DNA-bind_6   Myb-like DNA-binding domain 34 36 35
  Myb_DNA-bind_7   Myb DNA-binding like 10 11 11
  Myc-LZ   Myc leucine zipper domain 2 4 0
  N-SET   COMPASS (Complex proteins associated with Set1p) component N 3 4 0
  N-Term_TEN   Telomerase reverse transcriptase TEN domain 3 3 2
  N36   36-mer N-terminal peptide of the N protein (N36) 4 5 5
  N6_Mtase   N-6 DNA Methylase 10 24 22
  N6_N4_Mtase   DNA methylase 2 4 4
  NAD2   Novel AID APOBEC clade 2 14 37 25
  NaeI   Restriction endonuclease NaeI 1 2 2
  NAM   No apical meristem (NAM) protein 2 8 8
  NARP1   NMDA receptor-regulated protein 1 6 9 9
  NDC10_II   Centromere DNA-binding protein complex CBF3 subunit, domain 2 3 7 7
  NDT80_PhoG   NDT80 / PhoG like DNA-binding family 11 11 11
  Neil1-DNA_bind   Endonuclease VIII-like 1, DNA bind 21 60 59
  NFACT-R_1   NFACT protein RNA binding domain 5 5 1
  NFACT_N   NFACT N-terminal and middle domains 6 6 6
  NGF   Nerve growth factor family 1 2 2
  NgoMIV_restric   NgoMIV restriction enzyme 2 6 6
  NHL   NHL repeat 4 27 25
  NikR_C   NikR C terminal nickel binding domain 2 12 5
  Nipped-B_C   Sister chromatid cohesion C-terminus 4 4 0
  NLE   NLE (NUC135) domain 1 1 1
  NOB1_Zn_bind   Nin one binding (NOB1) Zn-ribbon like 9 9 9
  NOC3p   Nucleolar complex-associated protein 1 1 0
  NOG1   Nucleolar GTP-binding protein 1 (NOG1) 2 2 1
  NOG1_N   NOG1 N-terminal helical domain 2 2 2
  NOGCT   NOGCT (NUC087) domain 2 2 1
  Nop   snoRNA binding domain, fibrillarin 21 50 47
  Nop10p   Nucleolar RNA-binding protein, Nop10p family 13 14 9
  Nop16   Ribosome biogenesis protein Nop16 5 10 10
  Nop52   Nucleolar protein,Nop52 6 6 6
  NOP5NT   NOP5NT (NUC127) domain 1 1 1
  NPHI_C   Nucleoside triphosphatase I C-terminal 1 1 0
  NTP_transf_2   Nucleotidyltransferase domain 50 94 87
  NTR2   Nineteen complex-related protein 2 1 1 0
  NUC   Nuclease domain 30 38 3
  NUC194   NUC194 domain 11 25 0
  NucS   Endonuclease NucS 5 10 10
  NUDIX   NUDIX domain 8 16 9
  NUDIX_2   Nucleotide hydrolase 4 14 11
  NUDIX_4   NUDIX domain 13 14 14
  NUMOD3   NUMOD3 motif 2 2 2
  NUMOD4   NUMOD4 motif 1 1 1
  NusA_N   NusA N-terminal domain 18 20 10
  NusB   NusB family 8 18 13
  NusG   Transcription termination factor nusG 12 13 12
  OAS1_C   2'-5'-oligoadenylate synthetase 1, domain 2, C-terminus 5 5 5
  OB_Dis3   Dis3-like cold-shock domain 2 (CSD2) 11 12 4
  OB_NTP_bind   Oligonucleotide/oligosaccharide-binding (OB)-fold 38 63 50
  OB_RNB   Ribonuclease B OB domain 1 1 0
  OGG_N   8-oxoguanine DNA glycosylase, N-terminal domain 33 35 1
  Omega_Repress   Omega Transcriptional Repressor 3 12 12
  ORC2   Origin recognition complex subunit 2 13 13 9
  ORC3_ins   Origin recognition complex subunit 3 insertion domain 7 8 0
  ORC3_N   Origin recognition complex (ORC) subunit 3 N-terminus 7 7 5
  ORC4_C   Origin recognition complex (ORC) subunit 4 C-terminus 13 13 6
  ORC5_C   Origin recognition complex (ORC) subunit 5 C-terminus 13 24 13
  ORC6   Origin recognition complex subunit 6 (ORC6) 6 6 2
  ORC_WH_C   Origin recognition complex winged helix C-terminal 13 14 1
  OrfB_Zn_ribbon   Putative transposase DNA-binding domain 8 11 10
  P22_Cro   DNA-binding transcriptional regulator Cro 2 4 4
  P53   P53 DNA-binding domain 44 152 152
  P53_tetramer   P53 tetramerisation motif 4 16 0
  PA   PA domain 1 1 1
  PA-IIL   Fucose-binding lectin II (PA-IIL) 1 1 1
  PadR   Transcriptional regulator PadR-like family 5 24 20
  PADR1   PADR1 (NUC008) domain 4 8 0
  PAF   PCNA-associated factor histone like domain 1 2 0
  Paf1   Paf1 1 3 0
  Pan3_PK   Pan3 Pseudokinase domain 1 2 0
  PAPA-1   PAPA-1-like conserved region 1 1 0
  PAP_assoc   Cid1 family poly A polymerase 11 19 15
  PAP_central   Poly(A) polymerase central domain 1 1 1
  PAP_RNA-bind   Poly(A) polymerase predicted RNA binding domain 1 1 1
  Paramyxo_ncap   Paramyxovirus nucleocapsid protein 10 48 46
  ParB   ParB family 5 7 6
  ParBc   ParB-like nuclease domain 2 8 0
  PARP   Poly(ADP-ribose) polymerase catalytic domain 8 13 0
  PARP_reg   Poly(ADP-ribose) polymerase, regulatory domain 8 13 0
  PARP_regulatory   Poly A polymerase regulatory subunit 4 6 3
  Parvo_coat   Parvovirus coat protein VP2 8 8 8
  Parvo_NS1   Parvovirus non-structural protein NS1 4 27 0
  PAS   PAS fold 5 11 2
  PAS_11   PAS domain 3 3 0
  PAS_3   PAS fold 3 3 0
  PAS_4   PAS fold 1 2 0
  PAX   'Paired box' domain 4 6 6
  PAZ   PAZ domain 57 67 60
  Paz_1   PAZ domain 2 4 2
  PBP   Phosphatidylethanolamine-binding protein 5 5 0
  PC4   Transcriptional Coactivator p15 (PC4) 9 18 18
  PCI   PCI domain 4 8 0
  PCIF1_WW   Phosphorylated CTD interacting factor 1 WW domain 1 1 0
  PCNA_C   Proliferating cell nuclear antigen, C-terminal domain 12 36 6
  PCNA_N   Proliferating cell nuclear antigen, N-terminal domain 12 36 10
  PCRF   PCRF domain 2 2 1
  PD-C2-AF1   POU domain, class 2, associating factor 1 1 2 2
  PDCD9   Mitochondrial 28S ribosomal protein S30 (PDCD9) 4 8 8
  PDDEXK_1   PD-(D/E)XK nuclease superfamily 13 24 15
  PDDEXK_5   PD-(D/E)XK endonuclease 1 4 2
  PDGF   PDGF/VEGF domain 2 2 2
  PemK_toxin   PemK-like, MazF-like toxin of type II toxin-antitoxin system 8 18 13
  Penicillinase_R   Penicillinase repressor 4 8 8
  Peptidase_A21   Peptidase family A21 1 8 1
  Peptidase_A6   Peptidase A6 family 7 21 7
  Peptidase_C9   Peptidase family C9 1 2 0
  Peptidase_M1_N   Peptidase M1 N-terminal domain 10 10 0
  Peptidase_M24   Metallopeptidase family M24 1 1 1
  Peptidase_M28   Peptidase family M28 1 1 1
  Peptidase_S24   Peptidase S24-like 4 8 1
  Peptidase_S29   Hepatitis C virus NS3 protease 2 4 0
  Peptidase_S48   Peptidase family S48 5 12 12
  Pept_tRNA_hydro   Peptidyl-tRNA hydrolase 1 2 2
  Peripla_BP_1   Periplasmic binding proteins and sugar binding domain of LacI family 2 6 0
  Peripla_BP_3   Periplasmic binding protein-like domain 31 53 0
  Pescadillo_N   Pescadillo N-terminus 6 6 6
  PH   PH domain 2 2 0
  Phage_antitermQ   Phage antitermination protein Q 4 8 8
  Phage_CII   Bacteriophage CII protein 1 4 4
  Phage_clamp_A   Bacteriophage clamp loader A subunit 3 4 3
  Phage_coat   Phage PP7 coat protein 1 12 12
  Phage_Coat_B   Inovirus Coat protein B 2 3 1
  Phage_endo_I   Phage endonuclease I 1 2 2
  Phage_F   Capsid protein (F protein) 2 3 3
  Phage_G   Major spike protein (G protein) 2 2 0
  Phage_integrase   Phage integrase family 37 96 96
  Phage_int_SAM_1   Phage integrase, N-terminal SAM-like domain 5 14 14
  Phage_int_SAM_4   Phage integrase, N-terminal SAM-like domain 1 4 4
  Phage_int_SAM_5   Phage integrase SAM-like domain 5 8 8
  Phage_int_SAM_6   Phage integrase SAM-like domain 2 6 6
  Phage_lysozyme   Phage lysozyme 1 1 0
  Phage_mat-A   Phage maturation protein 1 1 1
  PHD   PHD-finger 6 13 1
  PhdYeFM_antitox   Antitoxin Phd_YefM, type II toxin-antitoxin system 3 16 16
  PHD_4   PHD-finger 1 3 3
  Phe_tRNA-synt_N   Aminoacyl tRNA synthetase class II, N-terminal domain 6 8 8
  PHF5   PHF5-like protein 14 14 9
  Phi-29_GP16_7   Bacteriophage phi-29 early protein GP16.7 1 6 2
  Phi-29_GP4   Phi-29-like late genes activator (early protein GP4) 1 2 2
  Phosphodiest   Type I phosphodiesterase / nucleotide pyrophosphatase 1 1 1
  Phosphoprotein   Vesiculovirus phosphoprotein 1 5 0
  PHP   PHP domain 10 15 0
  PH_TFIIH   TFIIH p62 subunit, N-terminal domain 12 12 0
  PI3_PI4_kinase   Phosphatidylinositol 3- and 4-kinase 11 13 0
  Pico_P1A   Picornavirus coat protein (VP4) 4 4 1
  PIF1   PIF1-like helicase 15 30 30
  PIN   PIN domain 5 20 0
  PIN_4   PIN domain 9 9 2
  PIN_6   PIN domain of ribonuclease 9 9 9
  Piwi   Piwi domain 77 112 108
  Pkinase   Protein kinase domain 9 12 3
  Plug_translocon   Plug domain of Sec61p 6 6 0
  Plus-3   Plus-3 domain 1 1 0
  PMC2NT   PMC2NT (NUC016) domain 1 1 0
  PND   FANCM pseudonuclease domain 1 1 0
  Pneumovirus_M2   Pneumovirus matrix protein 2 (M2) 2 11 0
  Pneumo_ncap   Pneumovirus nucleocapsid protein 4 63 63
  PNK3P   Polynucleotide kinase 3 phosphatase 5 6 6
  PNPase   Polyribonucleotide nucleotidyltransferase, RNA binding domain 4 12 0
  POB3_N   POB3-like N-terminal PH domain 3 3 0
  Podovirus_Gp16   Podovirus DNA encapsidation protein (Gp16) 1 5 5
  Polbeta   Polymerase beta, Nucleotidyltransferase 1 1 1
  PolC_DP2   DNA polymerase II large subunit DP2 16 16 12
  PolyA_pol   Poly A polymerase head domain 13 22 21
  PolyA_pol_RNAbd   Probable RNA and SrmB- binding site of polymerase A 13 22 16
  Polyoma_lg_T_C   Polyomavirus large T antigen C-terminus 1 4 4
  POP1   Ribonucleases P/MRP protein subunit POP1 7 9 9
  POPLD   POPLD (NUC188) domain 7 7 7
  POT1   Telomeric single stranded DNA binding POT1/CDC13 24 51 35
  POT1PC   ssDNA-binding domain of telomere protection protein 15 15 15
  Poty_coat   Potyvirus coat protein 2 43 43
  Pou   Pou domain - N-terminal to homeobox domain 14 28 27
  Pox_A22   Poxvirus A22 protein 1 4 4
  Pox_ATPase-GT   mRNA capping enzyme N-terminal, ATPase and guanylyltransferase 2 2 1
  Pox_MCEL   mRNA capping enzyme 2 2 0
  Pox_mRNA-cap   Poxvirus mRNA capping enzyme, small subunit 2 2 0
  Pox_polyA_pol   Poxvirus poly(A) polymerase nucleotidyltransferase domain 3 5 2
  Pox_polyA_pol_C   Poxvirus poly(A) polymerase C-terminal domain 3 5 4
  Pox_polyA_pol_N   Poxvirus poly(A) polymerase N-terminal domain 3 5 5
  Pox_Rap94   RNA polymerase-associated transcription specificity factor, Rap94 1 1 1
  Pox_RNA_pol   Poxvirus DNA-directed RNA polymerase, 18 kD subunit 3 4 0
  Pox_RNA_Pol_19   Poxvirus DNA-directed RNA polymerase 19 kDa subunit 3 3 0
  Pox_RNA_Pol_22   Poxvirus RNA polymerase 22 kDa subunit 3 3 0
  Pox_RNA_pol_35   Poxvirus DNA-directed RNA polymerase, 35 kD subunit 3 3 0
  Pox_VERT_large   Poxvirus early transcription factor (VETF), large subunit 1 1 1
  PP-binding   Phosphopantetheine attachment site 7 11 3
  PPR   PPR repeat 3 8 5
  PPR_1   PPR repeat 8 22 22
  PPR_2   PPR repeat family 8 51 43
  PPR_3   Pentatricopeptide repeat domain 2 7 7
  PPR_long   Pentacotripeptide-repeat region of PRORP 1 2 2
  PPV_E1_C   Papillomavirus helicase 3 23 22
  PPV_E2_C   E2 (early) protein, C terminal 4 7 7
  PRC2_HTH_1   Polycomb repressive complex 2 tri-helical domain 1 1 0
  Pre-PUA   Pre-PUA-like domain 1 1 1
  Pre-SET   Pre-SET motif 4 4 0
  preSET_CXC   CXC domain 2 2 2
  PriA_3primeBD   3'DNA-binding domain (3'BD) 6 26 19
  PriA_C   Primosomal protein N C-terminal domain 4 5 4
  PriA_CRR   PriA DNA helicase Cys-rich region (CRR) domain 1 2 0
  PriCT_1   Primase C terminal 1 (PriCT-1) 1 2 2
  Prim_Zn_Ribbon   Zinc-binding domain of primase-helicase 4 4 4
  pRN1_helical   Primase helical domain 3 3 3
  PRO8NT   PRO8NT (NUC069), PrP8 N-terminal domain 34 34 29
  PROCN   PROCN (NUC071) domain 35 35 32
  PROCT   PROCT (NUC072) domain 16 16 0
  Prok-RING_1   Prokaryotic RING finger family 1 3 7 0
  ProRS-C_1   Prolyl-tRNA synthetase, C-terminal 2 4 0
  Pro_isomerase   Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD 13 19 5
  Prp18   Prp18 domain 6 8 4
  Prp19   Prp19/Pso4-like 19 76 19
  PRP1_N   PRP1 splicing factor, N-terminal 4 6 3
  PRP21_like_P   Pre-mRNA splicing factor PRP21 like protein 7 7 0
  PRP3   pre-mRNA processing factor 3 (PRP3) 6 6 5
  Prp31_C   Prp31 C terminal domain 5 5 5
  PRP38   PRP38 family 4 4 2
  PRP4   pre-mRNA processing factor 4 (PRP4) like 1 1 1
  PRP8_domainIV   PRP8 domain IV core 33 33 13
  PRP9_N   Pre-mRNA-splicing factor PRP9 N-terminus 2 2 2
  PRY   SPRY-associated domain 2 4 0
  PseudoU_synth_1   tRNA pseudouridine synthase 3 18 13
  PseudoU_synth_2   RNA pseudouridylate synthase 4 11 11
  PSP   PSP 10 10 0
  PspA_IM30   PspA/IM30 family 3 5 4
  PSRP-3_Ycf65   Plastid and cyanobacterial ribosomal protein (PSRP-3 / Ycf65) 2 2 0
  PTS-HPr   PTS HPr component phosphorylation site 5 13 0
  PUA   PUA domain 20 26 23
  PUF   Pumilio-family RNA binding repeat 51 434 416
  PurA   PurA ssDNA and RNA-binding protein 1 1 1
  Pur_DNA_glyco   Methylpurine-DNA glycosylase (MPG) 6 7 7
  Put_DNA-bind_N   Putative DNA-binding protein N-terminus 4 9 9
  PWI   PWI domain 5 5 3
  PWWP   PWWP domain 9 22 16
  Pyr_excise   Pyrimidine dimer DNA glycosylase 2 3 3
  Qua1   Qua1 domain 2 4 0
  R-HINP1I   R.HinP1I restriction endonuclease 4 5 5
  Rad10   Binding domain of DNA repair protein Ercc1 (rad10/Swi10) 1 1 0
  Rad21_Rec8   Conserved region of Rad21 / Rec8 like protein 4 4 0
  Rad21_Rec8_N   N terminus of Rad21 / Rec8 like protein 4 4 0
  Rad4   Rad4 transglutaminase-like domain 8 8 8
  Rad51   Rad51 6 18 18
  Rad52_Rad22   Rad52/22 family double-strand break repair protein 2 33 19
  Rad60-SLD   Ubiquitin-2 like Rad60 SUMO-like 1 1 0
  Radical_SAM   Radical SAM superfamily 3 5 5
  RAG1   Recombination-activation protein 1 (RAG1), recombinase 43 83 83
  RAG2   Recombination activating protein 2 35 69 28
  RAI1   RAI1 like PD-(D/E)XK nuclease 5 7 7
  RAMA   Restriction Enzyme Adenine Methylase Associated 1 2 2
  RAMPs   RAMP superfamily 27 120 120
  Rap1-DNA-bind   Rap1, DNA-binding 4 5 5
  RapA_C   RNA polymerase recycling family C-terminal 2 3 0
  Ras   Ras family 2 4 4
  RBFA   Ribosome-binding factor A 2 2 2
  RbpA   RNA polymerase-binding protein 22 22 19
  RCC1   Regulator of chromosome condensation (RCC1) repeat 2 15 2
  RCC1_2   Regulator of chromosome condensation (RCC1) repeat 1 1 0
  RdRP_1   Viral RNA-dependent RNA polymerase 88 157 151
  RdRP_3   Viral RNA dependent RNA polymerase 15 16 16
  RdRP_4   Viral RNA-directed RNA-polymerase 9 10 10
  RdRP_5   Reovirus RNA-dependent RNA polymerase lambda 3 4 4 4
  REC1   Alpha helical recognition lobe domain 30 38 29
  RecA   recA bacterial DNA recombination protein 8 72 72
  RecC_C   RecC C-terminal domain 11 13 13
  RecG_C   ATP-dependent DNA helicase RecG C-terminal 1 1 0
  RecG_N   RecG N-terminal helical domain 1 1 0
  RecG_wedge   RecG wedge domain 1 1 1
  RecJ_OB   RecJ OB domain 3 3 2
  Recombinase   Recombinase 2 5 5
  RecQ_Zn_bind   RecQ zinc-binding 7 16 14
  RecR   RecR protein 16 16 4
  RecU   Recombination protein U 1 4 4
  Regulator_TrmB   Archaeal transcriptional regulator TrmB 3 12 0
  RepA_N   Replication initiator protein A (RepA) N-terminus 1 8 2
  REPA_OB_2   Replication protein A OB domain 3 5 5
  RepB_primase   RepB DNA-primase from phage plasmid 1 1 1
  Rep_1B   Replicase polyprotein 1ab 1 4 3
  Rep_3   Initiator Replication protein 3 4 4
  Rep_fac-A_3   Replication factor A protein 3 6 8 0
  Rep_fac-A_C   Replication factor-A C terminal domain 6 8 8
  Rep_N   Rep protein catalytic domain like 6 34 23
  Requiem_N   N-terminal domain of DPF2/REQ. 1 1 0
  ResIII   Type III restriction enzyme, res subunit 67 83 75
  Resolvase   Resolvase, N terminal domain 8 21 19
  Response_reg   Response regulator receiver domain 9 30 0
  RestrictionMunI   Type II restriction enzyme MunI 1 2 2
  RestrictionSfiI   Type II restriction enzyme SfiI 2 4 4
  REV   REV protein (anti-repression trans-activator protein) 2 5 5
  RE_AspBHI_N   Restriction endonuclease AspBHI N-terminal 1 4 1
  RE_BsaWI   BsaWI restriction endonuclease type 2 3 5 5
  RE_Eco29kI   Eco29kI restriction endonuclease 2 16 16
  RE_EcoO109I   Type II restriction endonuclease EcoO109I 1 2 2
  RE_HindIII   HindIII restriction endonuclease 7 32 32
  RE_NgoFVII   NgoFVII restriction endonuclease 2 4 4
  RE_R_Pab1   R.Pab1 restriction endonuclease 5 10 5
  RE_SinI   SinI restriction endonuclease 2 4 4
  RF-1   RF-1 domain 6 6 5
  RFX_DNA_binding   RFX DNA-binding domain 1 1 1
  RGS   Regulator of G protein signaling domain 2 2 0
  Rhabdo_ncap   Rhabdovirus nucleocapsid protein 11 92 92
  RHD_dimer   Rel homology dimerisation domain 28 72 52
  RHD_DNA_bind   Rel homology DNA-binding domain 29 73 73
  RHH_1   Ribbon-helix-helix protein, copG family 4 34 34
  Rho_N   Rho termination factor, N-terminal domain 23 133 1
  Rho_RNA_bind   Rho termination factor, RNA-binding domain 23 137 50
  Rhv   picornavirus capsid protein 7 15 4
  RIBIOP_C   40S ribosome biogenesis protein Tsr1 and BMS1 C-terminal 12 12 8
  Ribonuclease   ribonuclease 3 5 5
  Ribonuclease_3   Ribonuclease III domain 8 14 10
  Ribonuclease_P   Ribonuclease P 2 2 2
  Ribonuclease_T2   Ribonuclease T2 family 1 1 1
  Ribonucleas_3_3   Ribonuclease-III-like 14 26 13
  Ribonuc_2-5A   Ribonuclease 2-5A 2 3 0
  Ribonuc_P_40   Ribonuclease P 40kDa (Rpp40) subunit 2 2 2
  Ribosomal_L1   Ribosomal protein L1p/L10e family 39 48 39
  Ribosomal_L10   Ribosomal protein L10 39 40 38
  Ribosomal_L11   Ribosomal protein L11, RNA binding domain 132 137 117
  Ribosomal_L11_N   Ribosomal protein L11, N-terminal domain 74 75 51
  Ribosomal_L12   Ribosomal protein L7/L12 C-terminal domain 2 3 0
  Ribosomal_L12_N   Ribosomal protein L7/L12 dimerisation domain 4 5 0
  Ribosomal_L13   Ribosomal protein L13 188 188 176
  Ribosomal_L13e   Ribosomal protein L13e 7 7 6
  Ribosomal_L14   Ribosomal protein L14p/L23e 182 182 170
  Ribosomal_L14e   Ribosomal protein L14 8 8 6
  Ribosomal_L15e   Ribosomal L15 74 74 72
  Ribosomal_L16   Ribosomal protein L16p/L10e 171 171 158
  Ribosomal_L17   Ribosomal protein L17 103 103 95
  Ribosomal_L18   Ribosomal protein 60S L18 and 50S L18e 74 74 72
  Ribosomal_L18A   Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A 8 8 6
  Ribosomal_L18p   Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast 97 97 89
  Ribosomal_L18_c   Ribosomal L18 C-terminal region 1 1 0
  Ribosomal_L19   Ribosomal protein L19 102 102 92
  Ribosomal_L19e   Ribosomal protein L19e 72 73 71
  Ribosomal_L2   Ribosomal Proteins L2, RNA binding domain 181 181 168
  Ribosomal_L20   Ribosomal protein L20 103 103 95
  Ribosomal_L21e   Ribosomal protein L21e 68 68 65
  Ribosomal_L21p   Ribosomal prokaryotic L21 protein 102 102 95
  Ribosomal_L22   Ribosomal protein L22p/L17e 188 188 171
  Ribosomal_L22e   Ribosomal L22e protein family 2 2 1
  Ribosomal_L23   Ribosomal protein L23 182 182 169
  Ribosomal_L23eN   Ribosomal protein L23, N-terminal domain 3 3 3
  ribosomal_L24   Ribosomal proteins 50S L24/mitochondrial 39S L24 105 105 96
  Ribosomal_L24e   Ribosomal protein L24e 77 77 70
  Ribosomal_L25p   Ribosomal L25p family 82 83 74
  Ribosomal_L26   Ribosomal proteins L26 eukaryotic, L24P archaeal 78 78 74
  Ribosomal_L27   Ribosomal L27 protein 99 99 91
  Ribosomal_L27A   Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A 181 181 171
  Ribosomal_L27e   Ribosomal L27e protein family 3 3 1
  Ribosomal_L28   Ribosomal L28 family 83 83 83
  Ribosomal_L28e   Ribosomal L28e protein family 6 6 6
  Ribosomal_L29   Ribosomal L29 protein 180 180 164
  Ribosomal_L2_C   Ribosomal Proteins L2, C-terminal domain 182 182 170
  Ribosomal_L3   Ribosomal protein L3 194 197 183
  Ribosomal_L30   Ribosomal protein L30p/L7e 171 179 166
  Ribosomal_L30_N   Ribosomal L30 N-terminal domain 7 7 6
  Ribosomal_L31   Ribosomal protein L31 23 23 15
  Ribosomal_L31e   Ribosomal protein L31e 74 74 68
  Ribosomal_L32e   Ribosomal protein L32 74 74 71
  Ribosomal_L32p   Ribosomal L32p protein family 106 106 94
  Ribosomal_L33   Ribosomal protein L33 86 86 69
  Ribosomal_L34   Ribosomal protein L34 102 102 87
  Ribosomal_L34e   Ribosomal protein L34e 4 4 2
  Ribosomal_L35Ae   Ribosomal protein L35Ae 7 7 7
  Ribosomal_L35p   Ribosomal protein L35 92 92 78
  Ribosomal_L36   Ribosomal protein L36 78 78 66
  Ribosomal_L36e   Ribosomal protein L36e 7 7 7
  Ribosomal_L37ae   Ribosomal L37ae protein family 69 69 66
  Ribosomal_L37e   Ribosomal protein L37e 74 74 71
  Ribosomal_L38e   Ribosomal L38e protein family 3 3 2
  Ribosomal_L39   Ribosomal L39 protein 71 71 68
  Ribosomal_L4   Ribosomal protein L4/L1 family 196 198 178
  Ribosomal_L40e   Ribosomal L40e family 5 5 4
  Ribosomal_L41   Ribosomal protein L41 19 19 19
  Ribosomal_L44   Ribosomal protein L44 69 69 67
  Ribosomal_L5   Ribosomal protein L5 158 161 149
  Ribosomal_L50   Ribosomal subunit 39S 4 4 4
  Ribosomal_L5e   Ribosomal large subunit proteins 60S L5, and 50S L18 69 136 130
  Ribosomal_L5_C   ribosomal L5P family C-terminus 158 165 154
  Ribosomal_L6   Ribosomal protein L6 164 328 301
  Ribosomal_L6e   Ribosomal protein L6e 7 11 10
  Ribosomal_L7Ae   Ribosomal protein L7Ae/L30e/S12e/Gadd45 family 196 257 247
  Ribosomal_L9_C   Ribosomal protein L9, C-terminal domain 21 21 10
  Ribosomal_L9_N   Ribosomal protein L9, N-terminal domain 53 53 44
  Ribosomal_S10   Ribosomal protein S10p/S20e 241 247 236
  Ribosomal_S11   Ribosomal protein S11 239 239 230
  Ribosomal_S13   Ribosomal protein S13/S18 233 238 229
  Ribosomal_S13_N   Ribosomal S13/S15 N-terminal domain 68 68 68
  Ribosomal_S14   Ribosomal protein S14p/S29e 229 229 222
  Ribosomal_S15   Ribosomal protein S15 249 250 237
  Ribosomal_S16   Ribosomal protein S16 173 173 164
  Ribosomal_S17   Ribosomal protein S17 242 242 233
  Ribosomal_S17e   Ribosomal S17 68 68 66
  Ribosomal_S17_N   Ribosomal_S17 N-terminal 63 63 63
  Ribosomal_S18   Ribosomal protein S18 178 183 170
  Ribosomal_S19   Ribosomal protein S19 236 236 227
  Ribosomal_S19e   Ribosomal protein S19e 66 66 66
  Ribosomal_S2   Ribosomal protein S2 231 297 275
  Ribosomal_S20p   Ribosomal protein S20 168 168 161
  Ribosomal_S21   Ribosomal protein S21 24 24 24
  Ribosomal_S21e   Ribosomal protein S21e 60 60 30
  Ribosomal_S24e   Ribosomal protein S24e 70 70 69
  Ribosomal_S25   S25 ribosomal protein 60 60 58
  Ribosomal_S26e   Ribosomal protein S26e 44 44 44
  Ribosomal_S27   Ribosomal protein S27a 58 58 57
  Ribosomal_S27e   Ribosomal protein S27 67 67 67
  Ribosomal_S28e   Ribosomal protein S28e 68 68 64
  Ribosomal_S30   Ribosomal protein S30 66 66 66
  Ribosomal_S30AE   Sigma 54 modulation protein / S30EA ribosomal protein 3 3 3
  Ribosomal_S3Ae   Ribosomal S3Ae family 67 67 67
  Ribosomal_S3_C   Ribosomal protein S3, C-terminal domain 225 225 216
  Ribosomal_S4   Ribosomal protein S4/S9 N-terminal domain 224 224 213
  Ribosomal_S4e   Ribosomal family S4e 69 69 67
  Ribosomal_S5   Ribosomal protein S5, N-terminal domain 241 241 227
  Ribosomal_S5_C   Ribosomal protein S5, C-terminal domain 241 241 231
  Ribosomal_S6   Ribosomal protein S6 175 176 165
  Ribosomal_S6e   Ribosomal protein S6e 69 69 69
  Ribosomal_S7   Ribosomal protein S7p/S5e 240 247 237
  Ribosomal_S7e   Ribosomal protein S7e 63 63 62
  Ribosomal_S8   Ribosomal protein S8 244 246 236
  Ribosomal_S8e   Ribosomal protein S8e 70 70 70
  Ribosomal_S9   Ribosomal protein S9/S16 238 238 229
  Ribosomal_TL5_C   Ribosomal protein TL5, C-terminal domain 38 39 8
  Ribosom_S12_S23   Ribosomal protein S12/S23 260 260 239
  Ribos_L4_asso_C   60S ribosomal protein L4 C-terminal domain 7 7 6
  Ricin_B_lectin   Ricin-type beta-trefoil lectin domain 1 2 0
  Rif1_N   Rap1-interacting factor 1 N terminal 1 2 1
  RIG-I_C   RIG-I receptor C-terminal domain 33 63 57
  RIG-I_C-RD   C-terminal domain of RIG-I 40 78 78
  RIO1   RIO1 family 12 12 12
  Rio2_N   Rio2, N-terminal 6 6 6
  RIP   Ribosome inactivating protein 1 1 1
  RL10P_insert   Insertion domain in 60S ribosomal protein L10P 10 10 5
  RLI   Possible Fer4-like domain in RNase L inhibitor, RLI 7 7 6
  RMMBL   Zn-dependent metallo-hydrolase RNA specificity domain 9 19 14
  RnaseA   Pancreatic ribonuclease 7 11 11
  RNaseH_C   T4 RNase H, C terminal 1 1 1
  RNase_3_N   Ribonuclease III N-terminal domain 2 10 10
  RNase_E_G   Ribonuclease E/G family 6 13 10
  RNase_H   RNase H 193 272 268
  RNase_HII   Ribonuclease HII 5 5 5
  RNase_H_2   RNase_H superfamily 21 23 16
  RNase_J_C   Ribonuclease J C-terminal domain 2 3 0
  RNase_P-MRP_p29   Ribonuclease P/MRP, subunit p29 9 11 9
  RNase_PH   3' exoribonuclease family, domain 1 19 102 37
  RNase_PH_C   3' exoribonuclease family, domain 2 18 72 8
  RNase_P_p30   RNase P subunit p30 9 18 18
  RNase_P_pop3   RNase P subunit Pop3 4 4 2
  RNase_P_Rpp14   Rpp14/Pop5 family 9 13 11
  RNase_T   Exonuclease 61 129 119
  RNase_Zc3h12a   Zc3h12a-like Ribonuclease NYN domain 2 4 1
  RNA_GG_bind   PHAX RNA-binding domain 1 1 1
  RNA_ligase   RNA ligase 2 4 4
  RNA_pol   DNA-dependent RNA polymerase 20 31 30
  RNA_polI_A14   Yeast RNA polymerase I subunit RPA14 24 48 0
  RNA_polI_A34   DNA-directed RNA polymerase I subunit RPA34.5 22 22 0
  RNA_pol_3_Rpc31   DNA-directed RNA polymerase III subunit Rpc31 16 16 0
  RNA_pol_A_bac   RNA polymerase Rpb3/RpoA insert domain 431 716 17
  RNA_pol_A_CTD   Bacterial RNA polymerase, alpha chain C terminal domain 42 52 31
  RNA_pol_I_A49   A49-like RNA polymerase I associated factor 22 22 3
  RNA_pol_I_TF   RNA polymerase I specific initiation factor 13 13 13
  RNA_pol_L   RNA polymerase Rpb3/Rpb11 dimerisation domain 431 716 17
  RNA_pol_L_2   RNA polymerase Rpb3/Rpb11 dimerisation domain 212 214 1
  RNA_POL_M_15KD   RNA polymerases M/15 Kd subunit 211 213 1
  RNA_pol_N   RNA polymerases N / 8 kDa subunit 215 217 1
  RNA_pol_Rbc25   RNA polymerase III subunit Rpc25 17 17 0
  RNA_pol_Rpa2_4   RNA polymerase I, Rpa2 specific domain 25 25 0
  RNA_pol_Rpb1_1   RNA polymerase Rpb1, domain 1 436 529 396
  RNA_pol_Rpb1_2   RNA polymerase Rpb1, domain 2 434 585 381
  RNA_pol_Rpb1_3   RNA polymerase Rpb1, domain 3 434 468 0
  RNA_pol_Rpb1_4   RNA polymerase Rpb1, domain 4 431 465 5
  RNA_pol_Rpb1_5   RNA polymerase Rpb1, domain 5 434 602 391
  RNA_pol_Rpb1_6   RNA polymerase Rpb1, domain 6 169 171 0
  RNA_pol_Rpb1_7   RNA polymerase Rpb1, domain 7 169 171 0
  RNA_pol_Rpb2_1   RNA polymerase beta subunit 431 465 278
  RNA_pol_Rpb2_2   RNA polymerase Rpb2, domain 2 428 574 271
  RNA_pol_Rpb2_3   RNA polymerase Rpb2, domain 3 433 467 324
  RNA_pol_Rpb2_4   RNA polymerase Rpb2, domain 4 190 192 0
  RNA_pol_Rpb2_45   RNA polymerase beta subunit external 1 domain 218 250 0
  RNA_pol_Rpb2_5   RNA polymerase Rpb2, domain 5 190 192 0
  RNA_pol_Rpb2_6   RNA polymerase Rpb2, domain 6 434 468 294
  RNA_pol_Rpb2_7   RNA polymerase Rpb2, domain 7 436 470 299
  RNA_pol_Rpb4   RNA polymerase Rpb4 131 133 15
  RNA_pol_Rpb5_C   RNA polymerase Rpb5, C-terminal domain 212 214 0
  RNA_pol_Rpb5_N   RNA polymerase Rpb5, N-terminal domain 211 213 33
  RNA_pol_Rpb6   RNA polymerase Rpb6 430 464 10
  RNA_pol_Rpb8   RNA polymerase Rpb8 211 213 10
  RNA_pol_Rpc34   RNA polymerase Rpc34 subunit 17 17 3
  RNA_pol_Rpc4   RNA polymerase III RPC4 17 17 0
  RNA_pol_Rpc82   RNA polymerase III subunit RPC82 17 17 3
  RNA_replicase_B   RNA replicase, beta-chain 9 9 9
  RNB   RNB domain 17 19 18
  RNPP_C   RNPP family C-terminal domain 1 2 0
  ROK   ROK family 1 4 0
  ROQ_II   Roquin II domain 9 24 6
  Rotavirus_VP1   Rotavirus VP1 C-terminal domain 9 10 8
  Rota_NS35   Rotavirus non-structural protein 35 1 4 4
  Rota_NSP3   Rotavirus non-structural protein NSP3 1 8 8
  Rota_VP2   Rotavirus VP2 protein 2 20 5
  Rox3   Rox3 mediator complex subunit 1 1 0
  RPA43_OB   RPA43 OB domain in RNA Pol I 25 41 0
  RPC5   RPC5 protein 17 17 0
  RPN1_RPN2_N   RPN1 N-terminal domain 2 6 3
  rpo132   Poxvirus DNA dependent RNA polymerase 3 3 0
  rpo30_N   Poxvirus DNA dependent RNA polymerase 30kDa subunit 3 3 0
  RPOL_N   DNA-directed RNA polymerase N-terminal 17 31 31
  RpoY   RNA polymerase epsilon subunit 1 1 0
  Rpp20   Rpp20 subunit of nuclear RNase MRP and P 9 11 11
  Rpr2   RNAse P Rpr2/Rpp21/SNM1 subunit domain 9 11 10
  RPS31   Ribosomal protein S31e 2 2 2
  RQC   RQC domain 7 12 10
  RRF   Ribosome recycling factor 8 8 4
  Rrf2   Iron-dependent Transcriptional regulator 4 8 8
  RRM_1   RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 279 602 405
  RRM_2   RNA recognition motif 2 1 1 1
  RRM_3   RNA binding motif 5 7 7
  RRM_4   RNA recognition motif of the spliceosomal PrP8 34 34 25
  RRM_5   RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 16 16 16
  RRM_7   RNA recognition motif 2 2 2
  RRM_8   RRM-like domain 2 2 2
  RRM_occluded   Occluded RNA-recognition motif 4 5 4
  RRN3   RNA polymerase I specific transcription initiation factor RRN3 10 16 0
  Rrn6   RNA polymerase I-specific transcription-initiation factor 13 15 0
  RrnaAD   Ribosomal RNA adenine dimethylase 13 16 15
  rRNA_proc-arch   rRNA-processing arch domain 4 6 2
  Rrp15p   Rrp15p 1 1 0
  Rrp40_N   Exosome complex exonuclease Rrp40 N-terminal domain 7 7 0
  Rrp44_CSD1   Rrp44-like cold shock domain 11 13 6
  Rrp44_S1   S1 domain 10 10 2
  RS4NT   RS4NT (NUC023) domain 69 69 69
  Rsc14   RSC complex, Rsc14/Ldb7 subunit 1 2 2
  RsfS   Ribosomal silencing factor during starvation 6 6 3
  RsgA_GTPase   RsgA GTPase 7 7 7
  RTC   RNA 3'-terminal phosphate cyclase 3 4 3
  RtcB   tRNA-splicing ligase RtcB 1 1 1
  RTC_insert   RNA 3'-terminal phosphate cyclase (RTC), insert domain 3 4 0
  Rtf2   Rtf2 RING-finger 1 1 0
  RTP   Replication terminator protein 4 9 9
  Rtt102p   Rtt102p-like transcription regulator protein 7 7 0
  Rtt106   Histone chaperone Rttp106-like 3 6 1
  RT_RNaseH   RNase H-like domain found in reverse transcriptase 1 1 1
  RT_RNaseH_2   RNase H-like domain found in reverse transcriptase 5 9 2
  Runt   Runt domain 19 30 30
  RusA   Endodeoxyribonuclease RusA 1 4 2
  RuvA_C   RuvA, C-terminal domain 3 13 7
  RuvA_N   RuvA N terminal domain 3 13 0
  RuvC   Crossover junction endodeoxyribonuclease RuvC 2 4 4
  RuvC_1   RuvC nuclease domain 30 38 38
  RuvC_III   RuvC endonuclease subdomain 3 17 23 16
  rve   Integrase core domain 72 238 89
  RVT_1   Reverse transcriptase (RNA-dependent DNA polymerase) 160 395 217
  RVT_3   Reverse transcriptase-like 1 2 2
  RVT_connect   Reverse transcriptase connection domain 103 322 229
  RVT_N   N-terminal domain of reverse transcriptase 2 2 2
  RVT_thumb   Reverse transcriptase thumb domain 103 322 165
  S1   S1 RNA binding domain 158 172 21
  S10_plectin   Plectin/S10 domain 53 53 53
  S4   S4 domain 248 321 303
  SAD_SRA   SAD/SRA domain 24 47 44
  Saf4_Yju2   Saf4/Yju2 protein 5 6 5
  SAM_2   SAM domain (Sterile alpha motif) 3 3 3
  SAP   SAP domain 3 6 6
  SART-1   SART-1 family 2 2 1
  Sas10_Utp3   Sas10/Utp3/C1D family 1 1 0
  SASP   Small, acid-soluble spore proteins, alpha/beta type 1 3 3
  SAVED   SMODS-associated and fused to various effectors sensor domain 2 12 11
  SbcCD_C   Putative exonuclease SbcCD, C subunit 9 20 0
  SbcD_C   Type 5 capsule protein repressor C-terminal domain 1 2 1
  SBDS   Shwachman-Bodian-Diamond syndrome (SBDS) protein 4 4 2
  SBDS_C   SBDS protein C-terminal domain 4 4 4
  SBP_bac_1   Bacterial extracellular solute-binding protein 9 19 0
  SBP_bac_8   Bacterial extracellular solute-binding protein 1 1 0
  SCNM1_acidic   Acidic C-terminal region of sodium channel modifier 1 SCNM1 1 1 0
  SDE2_2C   Replication stress response SDE2 C-terminal 6 6 0
  Sec61_beta   Sec61beta family 6 6 0
  Sec63   Sec63 Brl domain 15 30 7
  SecA_DEAD   SecA DEAD-like domain 1 1 1
  SecA_PP_bind   SecA preprotein cross-linking domain 1 1 0
  SecA_SW   SecA Wing and Scaffold domain 2 3 1
  SecE   SecE/Sec61-gamma subunits of protein translocation complex 9 9 0
  SecG   Preprotein translocase SecG subunit 2 2 0
  SecM   Secretion monitor precursor protein (SecM) 2 2 2
  SecY   SecY 9 9 9
  SelA   L-seryl-tRNA selenium transferase 1 5 5
  SelB-wing_2   Elongation factor SelB, winged helix 2 6 6
  SelB-wing_3   Elongation factor SelB, winged helix 4 11 8
  SepRS_C   O-phosphoseryl-tRNA synthetase C-terminal domain 4 8 4
  SepSecS   O-phosphoseryl-tRNA(Sec) selenium transferase, SepSecS 4 14 14
  SeqA   SeqA protein C-terminal domain 4 9 9
  SeqA_N   SeqA protein N-terminal domain 1 4 0
  Seryl_tRNA_N   Seryl-tRNA synthetase N-terminal domain 3 6 4
  SET   SET domain 29 30 9
  SF3A2   Pre-mRNA-splicing factor SF3a complex subunit 2 (Prp11) 7 7 0
  SF3A3   Pre-mRNA-splicing factor SF3A3, of SF3a complex, Prp9 8 8 0
  SF3a60_bindingd   Splicing factor SF3a60 binding domain 6 6 0
  SF3a60_Prp9_C   SF3a60/Prp9 C-terminal 10 10 9
  SF3b1   Splicing factor 3B subunit 1 9 9 1
  SF3b10   Splicing factor 3B subunit 10 (SF3b10) 14 14 0
  Sgf11   Sgf11 (transcriptional regulation protein) 2 5 2
  Sgf11_N   SAGA-associated factor 11 N-terminal domain 2 5 2
  SH2   SH2 domain 6 17 0
  SH2_2   SH2 domain 2 2 0
  SH3_11   Retroviral integrase C-terminal SH3 domain 51 52 52
  SH3_12   Xrn1 SH3-like domain 1 1 0
  SH3_13   ATP-dependent RecD-like DNA helicase SH3 domain 14 16 12
  SH3_14   Dda helicase SH3 domain 1 3 3
  SH3_17   Restriction endonuclease SH3 domain 2 4 0
  She2p   RNA binding protein She2p 2 8 8
  SHS2_Rpb7-N   SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397 156 158 10
  Sigma54_activat   Sigma-54 interaction domain 1 6 0
  Sigma54_CBD   Sigma-54 factor, core binding domain 6 7 0
  Sigma54_DBD   Sigma-54, DNA binding domain 8 9 9
  Sigma70_ner   Sigma-70, non-essential region 46 79 0
  Sigma70_r1_1   Sigma-70 factor, region 1.1 8 8 0
  Sigma70_r1_2   Sigma-70 factor, region 1.2 135 159 152
  Sigma70_r2   Sigma-70 region 2 160 185 183
  Sigma70_r3   Sigma-70 region 3 136 159 132
  Sigma70_r4   Sigma-70, region 4 149 174 94
  Sigma70_r4_2   Sigma-70, region 4 10 11 5
  SKIP_SNW   SKIP/SNW domain 27 32 26
  Skp1   Skp1 family, dimerisation domain 1 2 0
  Skp1_POZ   Skp1 family, tetramerisation domain 1 2 0
  SLBP_RNA_bind   Histone RNA hairpin-binding protein RNA-binding domain 5 8 8
  Sld5   GINS complex protein 9 31 0
  SLD5_C   DNA replication complex GINS protein SLD5 C-terminus 9 9 0
  SLIDE   SLIDE 1 1 0
  Slu7   Pre-mRNA splicing Prp18-interacting factor 6 9 5
  Slx4   Slx4 endonuclease 2 3 1
  SMC_hinge   SMC proteins Flexible Hinge Domain 2 10 2
  SMC_N   RecF/RecN/SMC N terminal domain 4 8 7
  SMODS   Second Messenger Oligonucleotide or Dinucleotide Synthetase domain 1 1 1
  SmpB   SmpB protein 8 13 10
  SNF2-rel_dom   SNF2-related domain 35 39 34
  SNF5   SNF5 / SMARCB1 / INI1 7 14 0
  Snu56_snRNP   Snu56-like U1 small nuclear ribonucleoprotein component 6 6 6
  Sof1   Sof1-like domain 1 1 1
  Somatomedin_B   Somatomedin B domain 1 2 0
  SoPB_HTH   Centromere-binding protein HTH domain 3 9 7
  SOSSC   SOSS complex subunit C 1 1 0
  Spb1_C   Spb1 C-terminal domain 1 2 1
  Spo0A_C   Sporulation initiation factor Spo0A C terminal 1 4 4
  SprT-like   SprT-like family 1 1 0
  SPRY   SPRY domain 12 17 0
  SPT16   FACT complex subunit (SPT16/CDC68) 3 3 3
  Spt4   Spt4/RpoE2 zinc finger 14 14 0
  Spt5-NGN   Early transcription elongation factor of RNA pol II, NGN section 14 14 7
  Spuma_A9PTase   Spumavirus aspartic protease (A9) 3 6 2
  SRA   SET and RING associated domain 2 8 7
  SRAP   SOS response associated peptidase (SRAP) 11 15 15
  SRC-1   Steroid receptor coactivator 1 2 0
  SRF-TF   SRF-type transcription factor (DNA-binding and dimerisation domain) 15 54 51
  SRP-alpha_N   Signal recognition particle, alpha subunit, N-terminal 2 2 1
  SRP14   Signal recognition particle 14kD protein 7 15 11
  SRP19   SRP19 protein 16 21 20
  SRP54   SRP54-type protein, GTPase domain 15 29 11
  SRP54_N   SRP54-type protein, helical bundle domain 15 28 3
  SRP68   RNA-binding signal recognition particle 68 4 5 5
  SRP72   SRP72 RNA-binding domain 2 3 3
  SRP9-21   Signal recognition particle 9 kDa protein (SRP9) 7 10 5
  SRPRB   Signal recognition particle receptor beta subunit 2 2 0
  SRP_SPB   Signal peptide binding domain 35 41 40
  SSB   Single-strand binding protein family 12 44 43
  ssDNA_TraI_N   single-stranded DNA binding TraI N-terminal subdomain 1 1 0
  Ssl1   Ssl1-like 26 26 0
  SSrecog   Structure-specific recognition protein (SSRP1) 3 3 0
  STAG   STAG domain 2 3 0
  STAR_dimer   Homodimerisation region of STAR domain protein 2 4 0
  STAT_alpha   STAT protein, all-alpha domain 6 17 0
  STAT_bind   STAT protein, DNA binding domain 6 17 17
  Staufen_C   Staufen C-terminal domain 2 2 0
  STN1_2   CST, Suppressor of cdc thirteen homolog, complex subunit STN1 1 1 0
  Suf   Suppressor of forked protein (Suf) 1 2 0
  SUI1   Translation initiation factor SUI1 13 13 13
  Sulf_coat_C   Sulfolobus virus coat protein C terminal 4 151 151
  SURF6   Surfeit locus protein 6 1 1 1
  Surp   Surp module 8 10 4
  Sushi   Sushi repeat (SCR repeat) 2 8 2
  SUV3_C   Mitochondrial degradasome RNA helicase subunit C terminal 2 2 0
  Suv3_C_1   Suv3 C-terminal domain 1 1 1 1
  Suv3_N   Suv3 helical N-terminal domain 1 1 0
  SWI2_SNF2   SWI2/SNF2 ATPase 1 1 0
  SWIB   SWIB/MDM2 domain 7 7 0
  SWIRM   SWIRM domain 11 21 0
  SWIRM-assoc_1   SWIRM-associated region 1 7 14 0
  SWIRM-assoc_3   SWIRM-associated domain at the C-terminal 1 2 0
  SYF2   SYF2 splicing factor 17 17 17
  SYMPK_PTA1_N   Symplekin/PTA1 N-terminal 1 1 1
  T-box   T-box 9 22 21
  T3RM_EcoP15I_C   Type III R-M EcoP15I C-terminal domain 1 2 0
  T4-Gluco-transf   Bacteriophage T4 beta-glucosyltransferase 4 8 5
  T4_Rnl2_C   T4 RNA ligase 2 C-terminal 2 4 0
  TAF   TATA box binding protein associated factor (TAF) 8 15 0
  TAF4   Transcription initiation factor TFIID component TAF4 family 8 15 2
  TAF6_C   TAF6 C-terminal HEAT repeat domain 10 20 0
  TAF8_C   Transcription factor TFIID complex subunit 8 C-term 9 9 0
  TAFII28   hTAFII28-like protein conserved region 7 7 0
  TAFII55_N   TAFII55 protein conserved region 10 10 0
  TAL_effector   TAL effector repeat 32 837 828
  Tap-RNA_bind   Tap, RNA-binding 1 2 2
  Taq-exonuc   Taq polymerase, exonuclease 71 73 39
  TaqI_C   TaqI-like C-terminal specificity domain 12 25 25
  Tat   Transactivating regulatory protein (Tat) 4 5 4
  TatD_DNase   TatD related DNase 1 1 1
  Taxilin   Myosin-like coiled-coil protein 13 20 20
  TBP   Transcription factor TFIID (or TATA-binding protein, TBP) 89 234 232
  TCR   Tesmin/TSO1-like CXC domain, cysteine-rich domain 2 5 5
  TEA   TEA/ATTS domain 3 4 4
  TEBP_beta   Telomere-binding protein beta subunit (TEBP beta) 14 14 14
  Telomerase_RBD   Telomerase ribonucleoprotein complex - RNA binding domain 14 17 11
  Telomere_res   Telomere resolvase 10 11 11
  Ten1_2   Telomere-capping, CST complex subunit 1 1 0
  Tenui_N   Tenuivirus/Phlebovirus nucleocapsid protein 4 41 41
  Ter   DNA replication terminus site-binding protein (Ter protein) 8 8 8
  TERT_thumb   Telomerase reverse transcriptase thumb DNA binding domain 6 6 6
  TetR_C_1   Tetracyclin repressor-like, C-terminal domain 5 12 0
  TetR_C_11   Tetracyclin repressor-like, C-terminal domain 2 10 0
  TetR_C_13   Tetracyclin repressor-like, C-terminal domain 1 16 0
  TetR_C_15   Tetracyclin repressor-like, C-terminal domain 1 2 0
  TetR_C_2   MAATS-type transcriptional repressor, C-terminal region 2 4 0
  TetR_C_20   Tetracyclin repressor-like, C-terminal domain 3 7 0
  TetR_C_24   Tetracyclin repressor-like, C-terminal domain 2 6 0
  TetR_C_28   Tetracyclin repressor-like, C-terminal domain 1 4 0
  TetR_C_32   Tetracyclin repressor-like, C-terminal domain 1 2 0
  TetR_C_4   YsiA-like protein, C-terminal region 1 4 0
  TetR_C_5   QacR-like protein, C-terminal region 1 4 0
  TetR_C_6   BetI-type transcriptional repressor, C-terminal 2 4 0
  TetR_N   Bacterial regulatory proteins, tetR family 41 150 145
  Tet_JBP   Oxygenase domain of the 2OGFeDO superfamily 3 6 4
  Tex_N   Tex-like protein N-terminal domain 2 2 0
  TFA2_Winged_2   TFA2 Winged helix domain 2 33 33 2
  Tfb2   Transcription factor Tfb2 27 35 0
  Tfb2_C   Transcription factor Tfb2 (p52) C-terminal domain 29 29 0
  Tfb4   Transcription factor Tfb4 26 28 0
  Tfb5   Transcription factor TFIIH complex subunit Tfb5 29 29 1
  TFIIA   Transcription factor IIA, alpha/beta subunit 45 90 42
  TFIIA_gamma_C   Transcription initiation factor IIA, gamma subunit 45 45 0
  TFIIA_gamma_N   Transcription initiation factor IIA, gamma subunit, helical domain 45 45 0
  TFIIB   Transcription factor TFIIB repeat 55 113 102
  TFIID-18kDa   Transcription initiation factor IID, 18kD subunit 7 7 0
  TFIID-31kDa   Transcription initiation factor IID, 31kD subunit 8 15 0
  TFIID_20kDa   Transcription initiation factor TFIID subunit A 8 15 0
  TFIID_30kDa   Transcription initiation factor TFIID 23-30kDa subunit 8 15 0
  TFIID_NTD2   WD40 associated region in TFIID subunit, NTD2 domain 8 15 0
  TFIIE-A_C   C-terminal general transcription factor TFIIE alpha 1 1 0
  TFIIE_alpha   TFIIE alpha subunit 34 34 13
  TFIIE_beta   TFIIE beta subunit core domain 31 31 0
  TFIIF_alpha   Transcription initiation factor IIF, alpha subunit (TFIIF-alpha) 36 36 9
  TFIIF_beta   TFIIF, beta subunit HTH domain 31 31 25
  TFIIF_beta_N   TFIIF, beta subunit N-terminus 37 37 0
  TFIIS_C   Transcription factor S-II (TFIIS) 181 195 1
  TFIIS_M   Transcription factor S-II (TFIIS), central domain 15 15 0
  TFR_dimer   Transferrin receptor-like dimerisation domain 1 1 1
  TF_Zn_Ribbon   TFIIB zinc-binding 49 80 15
  TGS   TGS domain 2 2 0
  TGT   Queuine tRNA-ribosyltransferase 3 10 6
  TGT_C1   C1 domain of tRNA-guanine transglycosylase dimerisation 1 2 2
  TGT_C2   Patch-forming domain C2 of tRNA-guanine transglycosylase 1 2 2
  TH1   TH1 protein 1 1 0
  ThaI   Restriction endonuclease ThaI 1 2 2
  THAP   THAP domain 3 3 3
  Thg1   tRNAHis guanylyltransferase 4 12 6
  Thg1C   Thg1 C terminal domain 4 10 8
  ThiI   Thiamine biosynthesis protein (ThiI) 3 6 5
  Thioredoxin   Thioredoxin 19 24 3
  Thrombin_light   Thrombin light chain 22 24 1
  THUMP   THUMP domain 3 6 6
  Thx   30S ribosomal protein Thx 124 124 117
  TIG   IPT/TIG domain 1 4 0
  TIG_SUH   TIG domain 15 24 0
  TilS   TilS substrate binding domain 1 2 2
  TilS_C   TilS substrate C-terminal domain 1 2 2
  Tim44   Tim44-like domain 5 5 4
  TIP49   TIP49 P-loop domain 4 24 0
  TIP49_C   TIP49 AAA-lid domain 4 24 0
  TMV_coat   Virus coat protein (TMV like) 13 13 13
  Tna_leader   Tryptophanase operon leader peptide 2 2 2
  TniB   Bacterial TniB protein 5 54 34
  TniQ   TniQ 9 18 1
  Tnp_DNA_bind   Transposase DNA-binding 5 5 5
  Tnp_P_element   Transposase protein 2 4 4
  Tnp_P_element_C   87kDa Transposase 2 4 4
  TNV_CP   Satellite tobacco necrosis virus coat protein 1 1 1
  TolA_bind_tri   TolA binding protein trimerisation 1 2 2
  Tombus_P19   Tombusvirus P19 core protein 13 19 19
  Topoisom_bac   DNA topoisomerase 13 19 19
  Topoisom_I   Eukaryotic DNA topoisomerase I, catalytic core 20 20 19
  Topoisom_I_N   Eukaryotic DNA topoisomerase I, DNA binding fragment 16 16 16
  Topo_C_assoc   C-terminal topoisomerase domain 16 16 15
  Topo_Zn_Ribbon   Topoisomerase I zinc-ribbon-like 1 2 2
  Toprim   Toprim domain 96 210 209
  Toprim_2   Toprim-like 5 6 0
  Toprim_4   Toprim domain 4 6 1
  TOPRIM_C   C-terminal associated domain of TOPRIM 22 37 33
  Toprim_C_rpt   Topoisomerase C-terminal repeat 3 8 0
  Toprim_N   DNA primase catalytic core, N-terminal domain 4 7 5
  TORC_N   Transducer of regulated CREB activity, N terminus 2 3 3
  Torus   Torus domain 16 16 15
  Tospo_nucleocap   Tospovirus nucleocapsid protein 2 6 5
  Tower   Tower 1 1 1
  ToxN_toxin   Toxin ToxN, type III toxin-antitoxin system 4 11 11
  TPR_1   Tetratricopeptide repeat 10 18 0
  TPR_11   TPR repeat 2 6 6
  TPR_12   Tetratricopeptide repeat 16 24 0
  TPR_14   Tetratricopeptide repeat 2 2 0
  TPR_19   Tetratricopeptide repeat 11 22 16
  TPR_2   Tetratricopeptide repeat 8 8 0
  TraI   DNA helicase TraI 1 1 0
  TraI_2B   DNA relaxase TraI 2B/2B-like domain 1 1 1
  TRAM   TRAM domain 1 2 2
  Translin   Translin family 3 24 10
  Transposase_1   Transposase (partial DDE domain) 5 11 11
  Transposase_mut   Transposase, Mutator family 3 6 6
  Trans_coact   Phage late-transcription coactivator 1 1 1
  Trans_reg_C   Transcriptional regulatory protein, C terminal 11 51 27
  Tra_M   TraM protein, DNA-binding 2 12 12
  TRCF   TRCF domain 8 8 0
  Trigger_N   Bacterial trigger factor protein (TF) 3 3 2
  Trm112p   Trm112p-like protein 1 1 1
  Trm5_N   tRNA methyltransferase 5 N-terminal domain 4 6 6
  TrmB   Sugar-specific transcriptional regulator TrmB 3 12 12
  tRNA-synt_1   tRNA synthetases class I (I, L, M and V) 24 81 67
  tRNA-synt_1b   tRNA synthetases class I (W and Y) 7 15 15
  tRNA-synt_1c   tRNA synthetases class I (E and Q), catalytic domain 27 37 36
  tRNA-synt_1c_C   tRNA synthetases class I (E and Q), anti-codon binding domain 18 18 17
  tRNA-synt_1d   tRNA synthetases class I (R) 6 16 12
  tRNA-synt_1e   tRNA synthetases class I (C) catalytic domain 1 1 1
  tRNA-synt_1g   tRNA synthetases class I (M) 8 12 4
  tRNA-synt_1_2   Leucyl-tRNA synthetase, Domain 2 17 28 28
  tRNA-synt_2   tRNA synthetases class II (D, K and N) 8 20 11
  tRNA-synt_2b   tRNA synthetase class II core domain (G, H, P, S and T) 13 27 19
  tRNA-synt_2c   tRNA synthetases class II (A) 2 4 2
  tRNA-synt_2d   tRNA synthetases class II core domain (F) 12 20 8
  tRNA-synt_His   Histidyl-tRNA synthetase 1 1 1
  tRNA_anti-codon   OB-fold nucleic acid binding domain 28 48 39
  tRNA_bind   Putative tRNA binding domain 6 8 0
  tRNA_bind_2   Possible tRNA binding domain 1 4 0
  tRNA_bind_4   tRNA-binding domain 1 1 1
  tRNA_int_endo   tRNA intron endonuclease, catalytic C-terminal domain 1 4 4
  tRNA_int_endo_N   tRNA intron endonuclease, N-terminal domain 1 4 0
  tRNA_m1G_MT   tRNA (Guanine-1)-methyltransferase 3 6 6
  tRNA_Me_trans   tRNA methyl transferase 3 5 5
  tRNA_NucTransf2   tRNA nucleotidyltransferase, second domain 35 69 67
  tRNA_SAD   Threonyl and Alanyl tRNA synthetase second additional domain 3 5 1
  tRNA_synthFbeta   Phenylalanyl tRNA synthetase beta chain CLM domain 6 8 7
  tRNA_U5-meth_tr   tRNA (Uracil-5-)-methyltransferase 7 13 10
  TROVE   TROVE domain 2 4 4
  TrpBP   Tryptophan RNA-binding attenuator protein 14 308 154
  Trp_repressor   Trp repressor protein 4 16 16
  TruB-C_2   Pseudouridine synthase II TruB, C-terminal 2 2 1
  TruB_C_2   tRNA pseudouridylate synthase B C-terminal domain 18 19 1
  TruB_N   TruB family pseudouridylate synthase (N terminal domain) 18 25 22
  TrwC   TrwC relaxase 9 12 12
  Trypsin   Trypsin 26 30 26
  Tudor-knot   RNA binding activity-knot of a chromodomain 1 2 2
  Tudor_1_RapA   RapA N-terminal Tudor like domain 1 2 3 0
  Tudor_2   Jumonji domain-containing protein 2A Tudor domain 3 7 0
  Tudor_RapA   RapA N-terminal Tudor like domain 2 3 0
  TUTase   TUTase nucleotidyltransferase domain 11 19 19
  Tymo_coat   Tymovirus coat protein 3 9 5
  Type2_restr_D3   Type-2 restriction enzyme D3 domain 1 1 1
  Type_ISP_C   Type ISP C-terminal specificity domain 4 10 10
  Tyr-DNA_phospho   Tyrosyl-DNA phosphodiesterase 10 20 18
  T_Ag_DNA_bind   Origin of replication binding protein 8 19 19
  U-box   U-box domain 19 67 20
  U1snRNP70_N   U1 small nuclear ribonucleoprotein of 70kDa MW N terminal 10 14 12
  U3snoRNP10   U3 small nucleolar RNA-associated protein 10 1 1 0
  U3_assoc_6   U3 small nucleolar RNA-associated protein 6 2 2 0
  U3_snoRNA_assoc   U3 snoRNA associated 1 1 0
  U5_2-snRNA_bdg   U5-snRNA binding site 2 of PrP8 34 34 30
  U6-snRNA_bdg   U6-snRNA interacting domain of PrP8 34 34 26
  ubiquitin   Ubiquitin family 27 36 5
  UCH   Ubiquitin carboxyl-terminal hydrolase 4 7 4
  UCH_1   Ubiquitin carboxyl-terminal hydrolase 6 6 0
  UDG   Uracil DNA glycosylase superfamily 40 54 54
  UPF0113   UPF0113 PUA domain 1 1 1
  UPF0113_N   UPF0113 Pre-PUA domain 1 1 1
  UPF1_1B_dom   RNA helicase UPF1, 1B domain 2 2 1
  UPF1_Zn_bind   RNA helicase (UPF2 interacting domain) 1 1 0
  UQ_con   Ubiquitin-conjugating enzyme 3 4 1
  Utp12   Dip2/Utp12 Family 1 4 0
  Utp13   Utp13 specific WD40 associated domain 1 1 0
  UTP15_C   UTP15 C terminal 1 1 1
  Utp21   Utp21 specific WD40 associated putative domain 1 1 0
  Utp8   Utp8 family 1 1 0
  UTRA   UTRA domain 1 2 0
  UvdE   UV-endonuclease UvdE 1 1 1
  UVR   UvrB/uvrC motif 2 4 0
  UvrA_inter   UvrA interaction domain 1 1 0
  UvrB   Ultra-violet resistance protein B 8 14 0
  UvrB_inter   UvrB interaction domain 16 21 7
  UvrD-helicase   UvrD/REP helicase N-terminal domain 29 48 48
  UvrD_C   UvrD-like helicase C-terminal domain 28 61 55
  UvrD_C_2   UvrD-like helicase C-terminal domain 24 35 31
  V-set   Immunoglobulin V-set domain 50 162 66
  Val_tRNA-synt_C   Valyl tRNA synthetase tRNA binding arm 2 4 4
  VAR1   Mitochondrial ribosomal protein (VAR1) 2 2 2
  VEFS-Box   VEFS-Box of polycomb protein 2 2 0
  Viral_alk_exo   Viral alkaline exonuclease 2 2 2
  Viral_helicase1   Viral (Superfamily 1) RNA helicase 2 6 6
  Viral_Rep   Putative viral replication protein 1 3 3
  VirDNA-topo-I_N   Viral DNA topoisomerase I, N-terminal 3 3 3
  Vir_act_alpha_C   Virulence activator alpha C-term 1 8 4
  VP40   Matrix protein VP40 4 5 5
  VRR_NUC   VRR-NUC domain 13 24 16
  Vsr   DNA mismatch endonuclease Vsr 2 2 2
  VWA   von Willebrand factor type A domain 5 7 2
  WD40   WD domain, G-beta repeat 136 727 244
  WD40_like   WD40-like domain 1 2 0
  WGR   WGR domain 12 23 23
  WHEP-TRS   WHEP-TRS domain 1 1 0
  Whib   Transcription factor WhiB 3 3 3
  WHIM1   WSTF, HB1, Itc1p, MBD9 motif 1 1 1 0
  Whirly   Whirly transcription factor 5 8 8
  WRKY   WRKY DNA -binding domain 5 6 6
  XLF   XLF-Cernunnos, XRcc4-like factor, NHEJ component 2 4 0
  XPA_C   XPA protein C-terminus 11 20 20
  XPA_N   XPA protein N-terminal 11 20 0
  XPB_DRD   Xeroderma pigmentosum group B helicase damage recognition domain 1 2 0
  XPC-binding   XPC-binding domain 7 7 0
  XPG_I   XPG I-region 39 52 24
  XPG_N   XPG N-terminal domain 39 53 46
  Xpo1   Exportin 1-like protein 2 4 2
  XRCC4   DNA double-strand break repair and V(D)J recombination protein XRCC4 2 8 0
  XRN1_D1   Exoribonuclease Xrn1 D1 domain 1 1 0
  XRN1_D2_D3   Exoribonuclease Xrn1 D2/D3 domain 1 1 0
  XRN_M   Xrn1 helical domain 1 2 1
  XRN_N   XRN 5'-3' exonuclease N-terminus 1 1 1
  Y1_Tnp   Transposase IS200 like 11 30 30
  YEATS   YEATS family 1 1 0
  YL1_C   YL1 nuclear protein C-terminal domain 1 1 0
  YoeB_toxin   YoeB-like toxin of bacterial type II toxin-antitoxin system 2 6 2
  YqaJ   YqaJ-like viral recombinase domain 4 10 10
  YqgF   Holliday-junction resolvase-like of SPT6 2 2 1
  YscO   Type III secretion protein YscO 1 1 0
  YscO-like   YscO-like protein 1 2 2
  YTH   YT521-B-like domain 17 67 62
  z-alpha   Adenosine deaminase z-alpha domain 21 58 47
  ZapB   Cell division protein ZapB 5 8 7
  zf-C2H2   Zinc finger, C2H2 type 21 40 36
  zf-C2H2_10   C2H2 zinc-finger 1 1 1
  zf-C2H2_11   zinc-finger C2H2-type 2 2 2
  zf-C2H2_4   C2H2-type zinc finger 1 3 3
  zf-C2H2_jaz   Zinc-finger double-stranded RNA-binding 5 5 3
  zf-C2HC   Zinc finger, C2HC type 2 3 3
  zf-C2HE   C2HE / C2H2 / C2HC zinc-binding finger 14 30 28
  zf-C3HC4   Zinc finger, C3HC4 type (RING finger) 2 2 0
  zf-C3HC4_2   Zinc finger, C3HC4 type (RING finger) 1 4 0
  zf-C3HC4_3   Zinc finger, C3HC4 type (RING finger) 3 3 0
  zf-C3HC4_5   Zinc finger, C3HC4 type (RING finger) 16 16 0
  zf-C4   Zinc finger, C4 type (two domains) 89 209 209
  zf-C4pol   C4-type zinc-finger of DNA polymerase delta 8 8 0
  zf-C4_Topoisom   Topoisomerase DNA binding C4 zinc finger 1 2 2
  zf-CCCH   Zinc finger C-x8-C-x5-C-x3-H type (and similar) 10 65 62
  zf-CCCH_2   RNA-binding, Nab2-type zinc finger 2 12 10
  zf-CCCH_3   Zinc-finger containing family 4 4 4
  zf-CCCH_4   CCCH-type zinc finger 1 2 2
  zf-CCCH_8   Zinc-finger antiviral protein (ZAP) zinc finger domain 3 2 2 2
  zf-CCHC   Zinc knuckle 29 45 41
  zf-CW   CW-type Zinc Finger 2 2 0
  zf-CXXC   CXXC zinc finger domain 20 26 26
  zf-Di19   Drought induced 19 protein (Di19), zinc-binding 1 2 2
  zf-dskA_traR   Prokaryotic dksA/traR C4-type zinc finger 11 11 0
  zf-FPG_IleRS   Zinc finger found in FPG and IleRS 77 83 80
  zf-H2C2_2   Zinc-finger double domain 105 332 331
  zf-His_Me_endon   Zinc-binding loop region of homing endonuclease 7 16 16
  zf-HIT   HIT zinc finger 1 1 0
  zf-met   Zinc-finger of C2H2 type 10 11 10
  zf-nanos   Nanos RNA binding domain 2 2 2
  zf-P11   P-11 zinc finger 3 4 0
  zf-PARP   Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region 10 34 34
  zf-primase   Primase zinc finger 1 1 0
  zf-RanBP   Zn-finger in Ran binding protein and others 2 2 2
  zf-RING_13   RING/Ubox like zinc-binding domain 1 4 0
  zf-RING_6   zf-RING of BARD1-type protein 2 2 0
  zf-RNPHF   RNPHF zinc finger 1 1 0
  zf-RRN7   Zinc-finger of RNA-polymerase I-specific TFIIB, Rrn7 10 10 0
  zf-SCNM1   Zinc-finger of sodium channel modifier 1 1 1 1
  zf-TAZ   TAZ zinc finger 1 1 0
  zf-U1   U1 zinc finger 9 15 11
  zf-UBP   Zn-finger in ubiquitin-hydrolases and other protein 4 7 0
  zf_C2H2_13   Zinc finger domain 2 5 2
  zf_CCCH_4   Zinc finger domain 9 9 9
  zf_CCCH_5   Unkempt Zinc finger domain 1 (Znf1) 1 2 0
  Zn-ribbon_8   Zinc ribbon domain 2 5 5
  Zn_clus   Fungal Zn(2)-Cys(6) binuclear cluster domain 16 35 33
  Zn_ribbon_recom   Recombinase zinc beta ribbon domain 2 5 5
  ZZ   Zinc finger, ZZ type 5 6 0
© NPIDB team 2003 - 2021

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