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
MH1
(PF03165.15)
5x6m 5x6g 5od6 3qsv 3kmp 1mhd 1ozj 9
RNA_pol
(PF00940.18)
1qln 6erq 2pi4 1cez 2pi5 3e2e 7
LAGLIDADG_1
(PF00961.18)
5a78 3ko2 5a74 4z1x 5a72 1mow 7
LAGLIDADG_2
(PF03161.12)
3c0w 1r7m 3ool 3oor 5a0m 5
RHD_DNA_bind
(PF00554.21)
1nfk 1a3q 1le5 3
Endonuc-EcoRV
(PF09233.10)
1eop 2ge5 2
MotCF
(PF09158.9)
5jlt 5
PPV_E1_C
(PF00519.16)
1ksx 2
CcdA
(PF07362.11)
2h3a 2
GATA
(PF00320.26)
4hc9 1
MBD
(PF01429.18)
6c1v 1
T_Ag_DNA_bind
(PF02217.15)
2itl 1
B3
(PF02362.20)
6fas 1
NAM
(PF02365.14)
3swm 1
Topoisom_I_N
(PF02919.14)
1seu 1
Integrase_DNA
(PF02920.14)
1tn9 1
Hom_end
(PF05204.13)
1lws 1
NUMOD4
(PF07463.10)
1u3e 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 - 2019

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