Interaction mode
Mode:  H-Bb H-Mj H-Mn L-Bb 
Description: Conserved protein-DNA contacts are provided by helix(es) (H) with DNA backbone atoms (Bb), helix(es) (H) with the major groove of DNA (Mj), helix(es) (H) 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_alkylation
(PF08713.13)
3jx7 3jxy 5cl3 5cl4 5cl5 5cl6 5cl7 5cl8 5cl9 5cla 5clb 5cld 5cle 5kub 5uuf 5uug 5uuh 17
DNA_binding_1
(PF01035.22)
1t38 1t39 3gx4 3gyh 4enj 4enk 4hdu 4hdv 9
HMG_box
(PF00505.21)
1e7j 2lef 3tmm 3tq6 4nod 6hb4 6hc3 13
zf-H2C2_2
(PF13465.8)
1a1g 1a1i 1a1j 1jk2 4r2d 5ei9 6
Tnp_DNA_bind
(PF14706.8)
1mm8 1muh 1mus 3ecp 4dm0 5
HMG_box_2
(PF09011.12)
1ckt 4qr9 6erq 4
Sigma70_r2
(PF04542.16)
4xlq 6n61 6oul 3
UDG
(PF03167.21)
4uqm 5nnu 5
Piwi
(PF02171.19)
5gq9 5xp8 3
RNA_pol
(PF00940.21)
1h38 1s0v 2
XPG_N
(PF00752.19)
3qe9 2
Exog_C
(PF18026.3)
5zki 2
Homeodomain
(PF00046.31)
1k61 1
GerE
(PF00196.21)
4wuh 1
TetR_N
(PF00440.25)
2yvh 1
AGT
(PF11440.10)
1y8z 1
Tnp_P_element
(PF12017.10)
6pe2 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 polymerase beta, N-terminal domain-like
(a.60.6.1)
2bcq 2bcr 2bcs 2bcu 2bcv 2i9g 6
Methylated DNA-protein cysteine methyltransferase, C-terminal domain
(a.4.2.1)
1t38 1t39 1yfh 4
GalR/LacI-like bacterial regulator
(a.35.1.5)
1efa 1rzr 2pe5 3
T7 RNA polymerase
(e.8.1.3)
1h38 1s0v 7
Uracil-DNA glycosylase
(c.18.1.1)
4skn 1
Nuclear receptor
(g.39.1.2)
2nll 1
© NPIDB team 2003 - 2021

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