Interaction mode
Mode:  H-Bb H-Mj L-Bb L-Mn 
Description: Conserved protein-DNA contacts are provided by helix(es) (H) with DNA backbone atoms (Bb), helix(es) (H) with the major groove of DNA (Mj), loop(s) (L) with DNA backbone atoms (Bb), loop(s) (L) with the minor groove of DNA (Mn).
Pfam domains
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Pfam Domain Family PDB entries Number of structures
Homeobox
(PF00046.28)
1oct 2me6 2r5y 2r5z 3a01 3d1n 2lkx 2hot 1puf 1yrn 4uus 2d5v 2h1k 2hdd 2hos 3hdd 3l1p 5edn 5eea 5eg0 4s0h 4rdu 3lnq 3rkq 4cyc 4j19 9ant 1nk3 1hf0 1b72 1lfu 1le8 1b8i 1cqt 1fjl 1ig7 1gt0 1jgg 1hdd 1ic8 1au7 1apl 1mnm 1akh 1ahd 1nk2 70
HTH_7
(PF02796.14)
1jkp 1jkq 1jkr 2r0q 1jko 1jj8 1hcr 1ijw 11
Myb_DNA-binding
(PF00249.30)
1w0t 1w0u 3sjm 1iv6 7
Phage_integrase
(PF00589.21)
1z1g 1p7d 1pvp 6
Flp_C
(PF05202.11)
1p4e 1m6x 6
BEN
(PF10523.8)
4x0g 4ix7 4
IRF
(PF00605.16)
2o6g 1t2k 3
UDG
(PF03167.18)
4z47 5jxy 2
IBD
(PF10416.8)
1pp7 1pp8 2
Telomere_res
(PF16684.4)
4f43 4f41 2
MogR_DNAbind
(PF12181.7)
3fdq 2
Ets
(PF00178.21)
3jtg 1
PAX
(PF00292.17)
1k78 1
GntR
(PF00392.20)
5d4s 1
CENP-B_N
(PF04218.12)
1hlv 1
Sigma54_DBD
(PF04552.12)
2o9l 1
YqaJ
(PF09588.9)
3slp 1
DUF3591
(PF12157.7)
5fur 1
RAG1
(PF12940.6)
3jby 1


SCOP domains
Note: this data is based only on structures available at the moment of the last SCOP release (2009)
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SCOP Domain Family PDB entries Number of structures
Homeodomain
(a.4.1.1)
1akh 1apl 1au7 1b72 1b8i 1cqt 1fjl 1gt0 1hdd 1hf0 1ic8 1ig7 1jgg 1k61 1le8 1mnm 1oct 1puf 1yrn 2hdd 3hdd 9ant 1nk3 33
Lambda integrase-like, catalytic core
(d.163.1.1)
1kbu 1m6x 1ouq 1p4e 1p7d 1pvp 1pvq 1pvr 1xns 1xo0 1z1b 1z1g 4crx 5crx 23
Recombinase DNA-binding domain
(a.4.1.2)
1hcr 1ijw 1jj6 1jj8 1jko 1jkp 1jkq 1jkr 1u78 1zr2 2gm4 11
Nucleosome core histones
(a.22.1.1)
1kx3 1kx5 2nzd 2pyo 3b6f 3b6g 9
SRF-like
(d.88.1.1)
1hbx 1k6o 1mnm 1n6j 1srs 1tqe 10
Paired domain
(a.4.1.5)
1k78 1mdm 6pax 5
DNA repair glycosylase, 2 C-terminal domains
(a.96.1.3)
1fn7 1m3q 2
39 kda initiator binding protein, IBP39, N-terminal domain
(a.4.5.44)
1pp7 1pp8 3
Centromere-binding
(a.4.1.7)
1hlv 1
Cell cycle transcription factor e2f-dp
(a.4.5.17)
1cf7 1
Trp repressor, TrpR
(a.4.12.1)
1trr 1
© NPIDB team 2003 - 2017

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