Interaction mode
Mode:  S-Bb S-Mj L-Bb L-Mj 
Description: Conserved protein-DNA contacts are provided by β-strand(s) (S) with DNA backbone atoms (Bb), β-strand(s) (S) with the major groove of DNA (Mj), 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
MBD
(PF01429.21)
3c2i 6c1u 6c1v 6c2f 6cc8 6ceu 6cnq 11
MH1
(PF03165.18)
3qsv 5od6 5odg 5x6g 5x6m 7
RNA_pol
(PF00940.21)
1cez 1qln 2pi4 2pi5 6erq 5
IMS_C
(PF11799.10)
1zet 2ago 4dl4 4g3i 6uqi 5
LAGLIDADG_1
(PF00961.21)
3ko2 5a78 6bcf 6fb6 5
RHD_DNA_bind
(PF00554.24)
1a3q 1nfk 2ram 3
MotCF
(PF09158.12)
5jlt 6k4y 6
NAM
(PF02365.17)
3swm 3swp 5
AP2
(PF00847.22)
3igm 5wx9 2
Topoisom_I_N
(PF02919.17)
1k4s 1nh3 2
Integrase_DNA
(PF02920.17)
1b69 1tn9 2
LAGLIDADG_2
(PF03161.15)
1r7m 3oor 2
Endonuc-EcoRV
(PF09233.13)
1eop 2ge5 2
PPV_E1_C
(PF00519.19)
1ksx 4
zf-FPG_IleRS
(PF06827.16)
1k82 4
GATA
(PF00320.29)
4hc9 1
MutH
(PF02976.17)
2aor 1
WRKY
(PF03106.17)
6j4f 1
Hom_end
(PF05204.16)
1lws 1
CcdA
(PF07362.14)
2h3c 1
NUMOD4
(PF07463.13)
1u3e 1
Zn_ribbon_recom
(PF13408.8)
4kis 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
Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
(e.15.1.1)
1nh3 1rr8 1sc7 3
Rel/Dorsal transcription factors, DNA-binding domain
(b.2.5.3)
1a3q 1nfk 2
SMAD MH1 domain
(d.164.1.1)
1mhd 1ozj 3
Restriction endonuclease MspI
(c.52.1.23)
1sa3 1yfi 3
P4 origin-binding domain-like
(a.4.5.20)
1dp7 1
Restriction endonuclease EcoRV
(c.52.1.2)
1eop 1
C5 cytosine-specific DNA methylase, DCM
(c.66.1.26)
9mht 1
Intein endonuclease
(d.95.2.2)
1lws 1
© NPIDB team 2003 - 2021

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