Interaction mode
Mode:  S-Bb L-Bb 
Description: Conserved protein-DNA contacts are provided by β-strand(s) (S) with DNA backbone atoms (Bb), loop(s) (L) with DNA backbone atoms (Bb).
Pfam domains
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Pfam Domain Family PDB entries Number of structures
DNA_pol_B_palm
(PF14792.5)
4tus 4tur 4rq8 4rq6 4rq3 4rq2 4rq0 4rpx 4ppx 4r63 4ymn 5bom 5bol 4yn4 4ymm 4ubc 4ub4 4ub3 4ub2 4ub1 4uay 5eoz 4uaw 5bpc 4php 1bpz 4kll 4kli 4klh 4klg 4kld 4gxi 3rje 3isc 3isb 3c2m 3c2l 2p66 2fmq 1tva 1bpx 4klo 4klu 4phe 4mff 4nln 4ny8 4o5c 4p2h 4o5e 4pgq 4pgx 4mfc 4m9h 4m9n 4m9g 4mf2 4mf8 4mfa 4m2y 60
RVT_connect
(PF06815.12)
1t03 5j2n 5j2m 3v4i 3v6d 4r5p 5j2p 1j5o 1n5y 1n6q 3klh 3v81 3klg 3klf 5hro 5hlf 5hp1 5d3g 1r0a 5j2q 5i3u 5i42 3kjv 3kk1 3kk2 33
CENP-T_C
(PF15511.5)
1p3g 1p3b 1p3p 1p3i 1p3f 3w97 3azi 5cpk 3w99 4z5t 3azm 3aze 3x1u 21
TFIIA
(PF03153.12)
5fyw 5fur 1nvp 5iy8 5iyc 1rm1 5fz5 7
Histone
(PF00125.23)
4ym6 3aze 3x1s 2nqb 5cpi 1id3 6
IMS_C
(PF11799.7)
2w7o 2w7p 3pzp 2v9w 4qwb 3in5 6
RHD_dimer
(PF16179.4)
1owr 3gut 2o61 1p7h 1ram 6
DNA_pol_B
(PF00136.20)
3taf 4khy 2dtu 3rma 2p5g 5
Transposase_1
(PF01359.17)
4u7b 5hoo 3hos 3hot 8
HIN
(PF02760.14)
4lnq 4l5r 3rn5 3rn2 6
MutS_III
(PF05192.17)
1ewq 3thw 3thy 1nne 5
IMS
(PF00817.19)
4ir9 4r8u 2imw 3
Cas_Cas1
(PF01867.15)
5dlj 5ds6 3
MutS_IV
(PF05190.17)
1ewq 1nne 3
MBD
(PF01429.18)
5bt2 3c2i 2
RAG2
(PF03089.13)
3jby 2
Tudor-knot
(PF11717.7)
3oa6 2
IN_DBD_C
(PF00552.20)
5ejk 1
DNA_ligase_A_M
(PF01068.20)
2q2t 1
Hjc
(PF01870.17)
2wiw 1
DNA_ligase_OB
(PF03120.15)
2owo 1
Rad4
(PF03835.14)
2qsg 1
MerR_1
(PF13411.5)
5c8e 1
DNA_pol_B_thumb
(PF14791.5)
2fmq 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
DNA repair protein MutS, domain III
(a.113.1.1)
1e3m 1ewq 1fw6 1ng9 1nne 1oh5 1oh6 1oh7 1oh8 1w7a 1wb9 1wbb 1wbd 22
Nucleosome core histones
(a.22.1.1)
1kx3 1kx4 1kx5 2nzd 2pyo 3b6f 3b6g 3c1c 9
N-terminal domain of MutM-like DNA repair proteins
(b.113.1.1)
1l1t 1l1z 1l2c 1l2d 4
NF-kappa-B/REL/DORSAL transcription factors, C-terminal domain
(b.1.18.1)
1owr 1p7h 3
Transcription factor IIA (TFIIA), beta-barrel domain
(b.56.1.1)
1nvp 1
C-terminal, Zn-finger domain of MutM-like DNA repair proteins
(g.39.1.8)
1l2c 1
© NPIDB team 2003 - 2017

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