Interaction mode
Mode:  S-Bb S-Mn L-Bb 
Description: Conserved protein-DNA contacts are provided by β-strand(s) (S) with DNA backbone atoms (Bb), β-strand(s) (S) with the minor groove of DNA (Mn), 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
(PF14792.8)
1bpy 1huo 1huz 1tv9 1tva 1xsl 1xsp 1zjm 1zqa 1zqb 1zqc 1zqd 1zqe 1zqf 1zqg 1zqh 1zqi 1zqj 1zqk 1zql 1zqm 1zqn 1zqo 1zqp 1zqq 1zqr 1zqs 1zqt 2bcq 2bcr 2bcs 2bcu 2bpg 2fmp 2fmq 2fms 2i9g 2iso 2isp 2p66 2pfn 2pfo 2pfp 2pfq 2pxi 3c2k 3c2m 3c5g 3gdx 3hwt 3isb 3isc 3isd 3jpn 3jpo 3jpp 3jpq 3jpr 3jps 3jpt 3lk9 3mby 3mda 3mdc 3ogu 3pmn 3pnc 3rh4 3rh5 3rh6 3rje 3rjf 3rjg 3rjh 3rji 3rjj 3rjk 3tfr 3tfs 3upq 3v72 4do9 4doa 4dob 4doc 4f5n 4f5o 4f5p 4f5q 4f5r 4gxi 4gxj 4gxk 4jwm 4jwn 4k4g 4k4h 4k4i 4kld 4kle 4klf 4klg 4klh 4kli 4klj 4kll 4klm 4klo 4klt 4klu 4lvs 4m47 4m9g 4m9h 4m9j 4m9l 4m9n 4nlk 4nlz 4nm1 4nxz 4o5c 4o5k 4o9m 4pgx 4pha 4phd 4ppx 4r63 4r64 4r65 4r66 4rpx 4rpy 4rpz 4rq0 4rq2 4rq3 4rq4 4rq5 4rq6 4rq7 4rq8 4rt2 4rt3 4tup 4tuq 4uaw 4uay 4uaz 4ub1 4ub2 4ub3 4ub4 4ub5 4ubb 4ubc 4x5v 4xa5 4ymo 4z6c 4z6d 4z6e 4z6f 5bol 5bom 5bpc 5db6 5hhh 5iii 5iij 5iik 5iil 5iim 5iin 5iio 5j0o 5j0p 5j0q 5j0r 5j0s 5j0t 5j0u 5j0w 5j0x 5j0y 5j29 5j2b 5j2c 5j2d 5j2e 5j2f 5j2g 5j2h 5j2i 5j2j 5j2k 5tb8 5tba 5tbb 5tbc 5tzv 5u2r 5u2t 5u8g 5u8h 5u8i 5u9h 5ugn 5ugo 5ugp 5v1f 5v1g 5v1h 5v1i 5v1j 5v1n 5v1o 5v1p 5v1r 5vez 5vs4 5wnx 5wny 5wnz 5wo0 6bel 6bem 6bte 6btf 6cly 6cpq 6cr3 6cr4 6cr5 6cr6 6cr7 6cr8 6cr9 6crb 6crc 6crh 6cti 6ctj 6ctk 6ctl 6ctm 6ctn 6cto 6ctp 6ctq 6ctr 6ctt 6ctu 6ctv 6ctw 6ctx 6cu9 6cua 6dia 6dic 6e3v 6e3w 6g2q 6mr7 6mr8 6n2r 6n2t 6nku 6nkv 6nkw 6nkx 6nky 6nkz 6nl0 6ph5 6u2o 6u6b 6uok 6uom 6w2m 7icf 7ick 7icm 7ics 8icb 8icc 8ice 8icf 8icg 8ich 8icj 8ick 8icl 8icm 8icn 8icq 8icr 8ics 8ict 8icu 8icx 8icz 9ica 9icb 9icc 9icf 9icg 9ici 9icm 9icp 9icu 9icv 9icy 320
TBP
(PF00352.23)
1ngm 1qnc 1vol 4wzs 5fmf 5iy6 6cnc 6cnf 6f44 6gyk 11
Bac_DNA_binding
(PF00216.23)
1p51 1p71 1p78 4qju 7
CENP-T_C
(PF15511.8)
5wcu 5x7x 6hkt 3
Histone
(PF00125.26)
5wcu 6kw4 2
RVT_1
(PF00078.29)
1t03 1
IMS
(PF00817.22)
2au0 1
IMS_C
(PF11799.10)
3v6j 1
PDDEXK_1
(PF12705.9)
3u44 1
CRISPR_Cas9_WED
(PF18061.3)
5czz 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
"Histone-like" proteins from archaea
(b.34.13.1)
1azp 1azq 1bf4 1bnz 1c8c 1ca6 1wd0 1wd1 1wvl 9
TATA-box binding protein (TBP), C-terminal domain
(d.129.1.1)
1d3u 1jfi 1ngm 1qn6 1qn7 1qn9 1qnc 1rm1 1vol 10
Prokaryotic DNA-bending protein
(a.55.1.1)
1p51 1p71 1p78 3
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