Interaction mode
Mode:  H-Bb S-Bb L-Bb L-Mj 
Description: Conserved protein-DNA contacts are provided by helix(es) (H) with DNA backbone atoms (Bb), β-strand(s) (S) 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
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Pfam Domain Family PDB entries Number of structures
IMS_C
(PF11799.10)
1n48 3h4d 3q8r 3v6k 4o3s 4q8e 5dqi 5kfx 5kfz 5kg0 5kg1 5kg2 5kg3 5kg4 5kg7 5l1i 5l1k 17
MethyltransfD12
(PF02086.17)
4rtj 4rtk 4rtm 4rtn 4rtp 4rtq 4rtr 7
RHD_DNA_bind
(PF00554.24)
1owr 1p7h 1pzu 1s9k 2as5 2o93 16
SAD_SRA
(PF02182.19)
3clz 3f8i 3f8j 3q0f 4pw5 4pw7 9
zf-H2C2_2
(PF13465.8)
5kl3 5kl4 5kl6 6b0o 4
T_Ag_DNA_bind
(PF02217.18)
3qfq 4fgn 4gdf 4
NucS
(PF01939.18)
5gkf 5gkg 5gki 3
RE_Eco29kI
(PF09517.12)
3mx4 3nic 5
SeqA
(PF03925.15)
1lrr 3fmt 3
Histone
(PF00125.26)
5wcu 6m44 2
Helicase_C
(PF00271.33)
5z3u 6ne3 2
MazE_antitoxin
(PF04014.20)
2k1n 3
Cas_Cas1
(PF01867.18)
5wfe 2
DNA_pol_A
(PF00476.22)
1kln 1
RNA_pol
(PF00940.21)
6erp 1
MBD
(PF01429.21)
1ig4 1
Exo_endo_phos
(PF03372.25)
4b5g 1
Phage_endo_I
(PF05367.13)
2pfj 1
RNA_pol_I_A49
(PF06870.14)
6rwe 1
ParB
(PF08775.12)
2ntz 1
Endonuc-PvuII
(PF09225.12)
3pvi 1
RQC
(PF09382.12)
4tmu 1
NUDIX_4
(PF14815.8)
3g0q 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
Rel/Dorsal transcription factors, DNA-binding domain
(b.2.5.3)
1owr 1p7h 1pzu 2o93 11
Replication initiation protein E1
(d.89.1.2)
1ksx 1ksy 6
Replication modulator SeqA, C-terminal DNA-binding domain
(d.228.1.1)
1j3e 1lrr 2
Nucleosome core histones
(a.22.1.1)
1kx5 1
STAT DNA-binding domain
(b.2.5.5)
1bg1 1
Restriction endonuclease EcoRI
(c.52.1.1)
1cl8 1
Restriction endonuclease BamHI
(c.52.1.3)
3bam 1
Restriction endonuclease PvuII
(c.52.1.6)
3pvi 2
GCM domain
(d.239.1.1)
1odh 1
© NPIDB team 2003 - 2021

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