Interaction mode
Mode:  H-Bb H-Mj S-Bb 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), β-strand(s) (S) with DNA backbone atoms (Bb), 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
Histone
(PF00125.23)
4xzq 3wkj 3waa 3wa9 3w99 3wtp 3x1s 4qlc 4kud 3x1v 3x1t 3w98 3azm 3azl 3azk 3azj 3azn 3c1b 3w97 3o62 3mvd 3kwq 3c1c 3azi 5xm0 5gt0 5gsu 5gse 5e5a 5gt3 5x7x 5x0y 5x0x 5jrg 5gtc 5b33 5b32 5ay8 4z66 4z5t 4ys3 4ym5 5b0y 5b0z 5b31 5b24 5b1m 5b1l 1p3l 1p3b 1u35 1p3a 1p34 1eqz 1m1a 1m19 1zla 1f66 1s32 1p3f 1p3m 1p3o 1p3k 1p3p 1p3i 1p3g 2cv5 2f8n 3afa 3av1 3av2 3ayw 3aze 3azf 3azg 3azh 1aoi 3a6n 1m18 2nqb 1id3 151
MarR
(PF01047.21)
5hlg 5hlh 1z9c 4aik 17
Trans_reg_C
(PF00486.27)
1gxp 5ed4 5x5l 8
Rrf2
(PF02082.19)
4chu 4hf2 4hf1 6
Phage_integrase
(PF00589.21)
1pvq 1pvp 1z1b 4
Exc
(PF07825.10)
1rh6 2og0 2ief 4
IRF
(PF00605.16)
2o6g 2pi0 6
EBV-NA1
(PF02905.13)
1b3t 5t7x 4
Forkhead
(PF00250.17)
2c6y 5x07 2
DM
(PF00751.17)
4yj0 2
PhdYeFM_antitox
(PF02604.18)
4zm0 2
MarR_2
(PF12802.6)
3zpl 2
Ets
(PF00178.21)
1yo5 1
RNase_HII
(PF01351.17)
3o3h 1
KilA-N
(PF04383.12)
4ux5 1
HTH_17
(PF12728.6)
6ama 1
HTH_Crp_2
(PF13545.5)
5trd 1
C_LFY_FLO
(PF17538.1)
4bhk 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
Nucleosome core histones
(a.22.1.1)
1eqz 1f66 1id3 1kx4 1m18 1m19 1m1a 1p34 1p3a 1p3b 1p3f 1p3g 1p3i 1p3k 1p3l 1p3m 1p3o 1p3p 1s32 1u35 1zla 2cv5 2nqb 3b6g 3c1b 45
Lambda integrase-like, catalytic core
(d.163.1.1)
1kbu 1nzb 1ouq 1pvp 1pvq 1q3v 1xns 1xo0 2crx 2hof 3crx 4crx 14
Excisionase-like
(a.6.1.7)
1rh6 2ief 2og0 4
Interferon regulatory factor
(a.4.5.23)
2o6g 2pi0 3
Nuclear receptor
(g.39.1.2)
1ga5 1hlz 3
Replication initiation protein
(a.4.5.10)
1rep 1
ets domain
(a.4.5.21)
1yo5 1
PhoB-like
(a.4.6.1)
1gxp 2
MarR-like transcriptional regulators
(a.4.5.28)
1z9c 2
HNH-motif
(d.4.1.1)
1v14 1
Viral DNA-binding domain
(d.58.8.1)
1b3t 2
© NPIDB team 2003 - 2019

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