General information
PDB ID 2E2H
Title RNA POLYMERASE II ELONGATION COMPLEX AT 5 MM MG2+ WITH GTP
PDB header TRANSCRIPTION,TRANSFERASE/DNA-RNA HYBRID
Date 2006-11-14
Experimental method X-RAY DIFFRACTION
Resolution (A) 3.95
Kind hybrid
Organism SACCHAROMYCES CEREVISIAE
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PDB PDBe MMDB Jena OCA
CATH PDBsum HSSP PDBePISA UniProt
ProteopediA BIPA
PRIDB
Composition of PDB entry and biounits
File: Protein chains: DNA chains: RNA chains: No. of models: Action:
PDB entry:
pdb2e2h.pdb ABCEFHIJKL TN R 0
Biounits:
2e2h.pdb1.pdb ABCEFHIJKL TN R 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
RNA_pol_Rpb1_5 Domain P04050_807-1397 3.8e-107 1 No_clan A 807 1397 T   
RNA_pol_Rpb1_1 Domain P04050_11-340 7.5e-107 1 No_clan A 11 340 TR   
RNA_pol_Rpb1_2 Domain P04050_342-507 1.7e-77 1 No_clan A 342 507 RT   
RNA_pol_Rpb1_6 Domain P04050_873-1056 2.4e-63 1 No_clan A 873 1056   
RNA_pol_Rpb1_3 Domain P04050_510-669 7.7e-47 1 No_clan A 510 669   
RNA_pol_Rpb1_4 Domain P04050_693-800 5.2e-35 1 No_clan A 693 800   
RNA_pol_Rpb1_7 Domain P04050_1141-1274 1.2e-32 1 No_clan A 1141 1274   
RNA_pol_Rpb2_6 Domain P08518_752-1124 2e-121 1 CL0410 B 752 1124 RT   
RNA_pol_Rpb2_2 Domain P08518_219-407 3.8e-47 1 No_clan B 219 407   
RNA_pol_Rpb2_7 Domain P08518_1126-1219 1.6e-33 1 No_clan B 1126 1219 T   
RNA_pol_Rpb2_4 Domain P08518_580-641 1.5e-25 1 No_clan B 580 641   
RNA_pol_Rpb2_3 Domain P08518_481-545 3.1e-20 1 No_clan B 481 545 T   
RNA_pol_Rpb2_5 Domain P08518_681-745 3.4e-19 1 No_clan B 681 745   
RNA_pol_A_bac Domain P16370_49-171 7.3e-32 1 No_clan C 49 171   
RNA_pol_L Domain P16370_19-255 6.6e-19 1 CL0509 C 19 255   
RNA_pol_Rpb5_C Domain P20434_142-214 1.2e-31 1 No_clan E 142 214   
RNA_pol_Rpb5_N Domain P20434_6-100 2.9e-20 1 CL0236 E 6 109   
RNA_POL_M_15KD Domain P27999_4-41 1.2e-17 1 CL0167 I 4 41   
TFIIS_C Domain P27999_73-111 1.3e-14 1 CL0167 I 73 111   
RNA_pol_N Domain P22139_1-60 5.4e-30 1 No_clan J 1 60   
RNA_pol_L_2 Domain P38902_30-104 1.6e-24 1 CL0509 K 30 104   
DNA_RNApol_7kD Domain P40422_29-60 1.9e-16 1 CL0167 L 29 60   
RNA_pol_Rpb2_1 Family P08518_42-455 9e-53 1 No_clan B 42 455   
RNA_pol_Rpb6 Family P20435_79-132 7e-18 1 No_clan F 79 132   
RNA_pol_Rpb8 Family P20436_7-146 2.1e-42 1 CL0021 H 7 146   
SCOP domains
Classification: Protein: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
Class: Multi-domain proteins (alpha and beta)
  Fold: beta and beta-prime subunits of DNA dependent RNA-polymerase
    Superfamily: beta and beta-prime subunits of DNA dependent RNA-polymerase
      Family: RNA-polymerase beta-prime
RBP1 A 2 1445 RT -
Class: Multi-domain proteins (alpha and beta)
  Fold: beta and beta-prime subunits of DNA dependent RNA-polymerase
    Superfamily: beta and beta-prime subunits of DNA dependent RNA-polymerase
      Family: RNA-polymerase beta
RBP2 B 20 1223 RT -
Class: Alpha and beta proteins (a+b)
  Fold: DCoH-like
    Superfamily: RBP11-like subunits of RNA polymerase
      Family: RNA polymerase alpha subunit dimerisation domain
RPB3 C 3 37 -
Class: Alpha and beta proteins (a+b)
  Fold: DCoH-like
    Superfamily: RBP11-like subunits of RNA polymerase
      Family: RNA polymerase alpha subunit dimerisation domain
RPB3 C 173 268 -
Class: Alpha and beta proteins (a+b)
  Fold: DCoH-like
    Superfamily: RBP11-like subunits of RNA polymerase
      Family: RNA polymerase alpha subunit dimerisation domain
RPB3 C 3 37 -
Class: Alpha and beta proteins (a+b)
  Fold: DCoH-like
    Superfamily: RBP11-like subunits of RNA polymerase
      Family: RNA polymerase alpha subunit dimerisation domain
RPB3 C 173 268 -
Class: Alpha and beta proteins (a+b)
  Fold: Insert subdomain of RNA polymerase alpha subunit
    Superfamily: Insert subdomain of RNA polymerase alpha subunit
      Family: Insert subdomain of RNA polymerase alpha subunit
RPB3 C 42 172 -
Class: Alpha and beta proteins (a/b)
  Fold: Restriction endonuclease-like
    Superfamily: Eukaryotic RPB5 N-terminal domain
      Family: Eukaryotic RPB5 N-terminal domain
Eukaryotic RPB5 N-terminal domain E 3 143 -
Class: Alpha and beta proteins (a+b)
  Fold: RPB5-like RNA polymerase subunit
    Superfamily: RPB5-like RNA polymerase subunit
      Family: RPB5
Eukaryotic RPB5 C-terminal domain E 144 215 -
Class: All alpha proteins
  Fold: RPB6/omega subunit-like
    Superfamily: RPB6/omega subunit-like
      Family: RPB6
RPB6 F 72 154 -
Class: All beta proteins
  Fold: OB-fold
    Superfamily: Nucleic acid-binding proteins
      Family: RNA polymerase subunit RBP8
RNA polymerase subunit RBP8 H 2 146 -
Class: Small proteins
  Fold: Rubredoxin-like
    Superfamily: Zinc beta-ribbon
      Family: Transcriptional factor domain
RBP9 subunit of RNA polymerase II I 2 49 -
Class: Small proteins
  Fold: Rubredoxin-like
    Superfamily: Zinc beta-ribbon
      Family: Transcriptional factor domain
RBP9 subunit of RNA polymerase II I 50 120 -
Class: All alpha proteins
  Fold: DNA/RNA-binding 3-helical bundle
    Superfamily: RNA polymerase subunit RPB10
      Family: RNA polymerase subunit RPB10
RNA polymerase subunit RPB10 J 1 65 -
Class: Alpha and beta proteins (a+b)
  Fold: DCoH-like
    Superfamily: RBP11-like subunits of RNA polymerase
      Family: RBP11/RpoL
RPB11 K 1 114 -
Class: Small proteins
  Fold: Rubredoxin-like
    Superfamily: RNA polymerase subunits
      Family: RBP12 subunit of RNA polymerase II
RBP12 subunit of RNA polymerase II L 25 70 -
GO terms
Protein chains: GO type: GO description:
B=1-1224 C mitochondrion
B=1-1224 F ribonucleoside binding
C=1-318 P termination of RNA polymerase II transcription
E=1-215 P tRNA transcription from RNA polymerase III promoter
F=1-155 C cytoplasm
I=1-122 F zinc ion binding
I=1-122 P maintenance of transcriptional fidelity during DNA-dependent transcription elongation from RNA polymerase II promoter
I=1-122 P transcription-coupled nucleotide-excision repair
I=1-122 P transcription initiation from RNA polymerase II promoter
L=1-70 C DNA-directed RNA polymerase II, core complex
L=1-70 C DNA-directed RNA polymerase I complex
L=1-70 C DNA-directed RNA polymerase III complex
L=1-70 F metal ion binding
L=1-70 F DNA binding
L=1-70 F DNA-directed RNA polymerase activity
L=1-70 P transcription from RNA polymerase III promoter
L=1-70 P transcription from RNA polymerase II promoter
L=1-70 P transcription from RNA polymerase I promoter
Sequences
Download file with secondary structure created by Stride  
2e2h.pdb1.pdb:   [ download sequences in FASTA format ]
N (dna): 
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T (dna): 
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A (protein): 
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B (protein): 
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C (protein): 
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E (protein): 
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F (protein): 
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H (protein): 
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I (protein): 
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J (protein): 
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K (protein): 
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L (protein): 
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R (rna): 
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