Interaction mode
Mode:  H-Bb S-Bb L-Bb L-Mn 
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 minor groove of DNA (Mn).
Pfam domains
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Pfam Domain Family PDB entries Number of structures
DNA_pol_B
(PF00136.20)
4ki4 4khw 4khu 5iud 5vu9 5vu7 5vu6 5omv 5omq 3k57 4khq 4k8x 3k5m 3k5l 3k59 3k58 3iay 3maq 4fyd 22
Histone
(PF00125.23)
1aoi 5gse 3tu4 3c1c 5cpi 5cpk 2f8n 5xm0 1eqz 1f66 1p3f 1p3i 1s32 4jjn 5x0x 19
Toprim
(PF01751.21)
5bta 5bs8 5btg 2xkk 2rgr 4fm9 5btn 5bti 5btl 5btd 5btc 18
DNA_pol_A
(PF00476.19)
2hht 2ajq 1x9s 1skr 4ztz 4ztu 6
Exo_endo_phos
(PF03372.22)
5dfi 5wn1 5dfj 5dg0 4
Bac_DNA_binding
(PF00216.20)
5wfe 1
DNA_ligase_A_M
(PF01068.20)
3l2p 1
Piwi
(PF02171.16)
4n41 1
DNA_pol3_alpha
(PF07733.11)
3e0d 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
Nucleosome core histones
(a.22.1.1)
1eqz 1f66 1kx5 1p3i 1s32 1zbb 9
Prokaryotic DNA-bending protein
(a.55.1.1)
1ouz 1owf 1owg 2ht0 5
HNH-motif
(d.4.1.1)
1v14 1v15 3
Lambda integrase-like, catalytic core
(d.163.1.1)
1ma7 1pvr 2
Replication modulator SeqA, C-terminal DNA-binding domain
(d.228.1.1)
1lrr 1
© NPIDB team 2003 - 2019

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