Interaction mode
Mode:  H-Bb L-Bb L-Mj 
Description: Conserved protein-DNA contacts are provided by helix(es) (H) with DNA backbone atoms (Bb), loop(s) (L) with DNA backbone atoms (Bb), loop(s) (L) with the major groove of DNA (Mj).
Pfam domains
Export table
Pfam Domain Family PDB entries Number of structures
TAL_effector
(PF03377.15)
3ugm 4cja 4gjr 4osh 4osi 4osj 4osk 63
RHD_DNA_bind
(PF00554.24)
1a66 1gji 1imh 1lei 5u01 7
H2TH
(PF06831.16)
3go8 3gp1 3gpp 3gpu 3gpx 5
Helicase_C
(PF00271.33)
6jyl 6k1p 6kw3 6p4f 5
HhH-GPD
(PF00730.27)
3cvs 3cvt 3cwt 3d4v 4
Methylase_S
(PF01420.21)
2y7h 5ybb 7btq 4
Y1_Tnp
(PF01797.18)
2vic 2vih 2vjv 4
MethyltransfD12
(PF02086.17)
4rtl 4rto 4rts 3
zf-C2H2
(PF00096.28)
5k5l 5yel 3
zf-H2C2_2
(PF13465.8)
5kl4 6b0o 3
zf-CXXC
(PF02008.22)
3qmb 3qmc 2
Sigma70_r2
(PF04542.16)
6wr6 7khc 2
APOBEC2
(PF18772.3)
5w0u 5w1c 2
Zn_clus
(PF00172.20)
1qp9 2
rve
(PF00665.28)
5u1c 2
Cas_Cas1
(PF01867.18)
5xvp 2
Phi-29_GP4
(PF05464.13)
2fio 2
Rep_N
(PF08724.12)
1rz9 2
VRR_NUC
(PF08774.13)
4ri8 2
DNA_methylase
(PF00145.19)
2z6q 1
GerE
(PF00196.21)
6ide 1
DNA_gyraseB
(PF00204.27)
5j5q 1
LacI
(PF00356.23)
2kek 1
TFIIB
(PF00382.21)
5iya 1
HSF_DNA-bind
(PF00447.19)
5hdn 1
MCM
(PF00493.25)
6f0l 1
Linker_histone
(PF00538.21)
6la8 1
LAGLIDADG_1
(PF00961.21)
6bcf 1
Topoisom_I
(PF01028.22)
1tl8 1
MarR
(PF01047.24)
5hso 1
HTH_3
(PF01381.24)
4pu3 1
N6_N4_Mtase
(PF01555.20)
4zcf 1
SAD_SRA
(PF02182.19)
3f8i 1
T_Ag_DNA_bind
(PF02217.18)
3qfq 1
SMC_N
(PF02463.21)
6yuf 1
SeqA
(PF03925.15)
1iu3 1
MazE_antitoxin
(PF04014.20)
5l6l 1
ORC2
(PF04084.16)
5zr1 1
RNA_pol_I_TF
(PF04090.14)
6rql 1
RNA_pol_Rpb2_1
(PF04563.17)
5m5x 1
YqaJ
(PF09588.12)
3sm4 1
PDDEXK_1
(PF12705.9)
6ppr 1
AAA_23
(PF13476.8)
6s85 1
TOPRIM_C
(PF16898.7)
4g0w 1
HTH_48
(PF17906.3)
4u7b 1


SCOP domains
Note: this data is based only on structures available at the moment of the last SCOP release (2009)
Export table
SCOP Domain Family PDB entries Number of structures
DNA repair glycosylase, 2 C-terminal domains
(a.96.1.3)
1diz 2noz 3cvs 3cvt 3cwt 3d4v 6
Rel/Dorsal transcription factors, DNA-binding domain
(b.2.5.3)
1imh 1lei 3
Restriction endonuclease BamHI
(c.52.1.3)
1bhm 2bam 2
Zn2/Cys6 DNA-binding domain
(g.38.1.1)
1qp9 1zme 2
GalR/LacI-like bacterial regulator
(a.35.1.5)
1wet 1
Transcription factor IIB (TFIIB), core domain
(a.74.1.2)
1c9b 3
Mismatch glycosylase
(a.96.1.2)
1rrs 1
Restriction endonuclease PvuII
(c.52.1.6)
2pvi 1
Replication modulator SeqA, C-terminal DNA-binding domain
(d.228.1.1)
1iu3 2
© NPIDB team 2003 - 2021

text