Interaction mode
Mode:  H-Bb H-Mj H-Mn S-Bb L-Bb L-Mn 
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), 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_A
(PF00476.22)
1l3t 1l3v 1l5u 1njy 1njz 1nkb 1nkc 1u4b 1ua0 1x9m 1xc9 2hhs 2hht 2xo7 2xy5 2xy6 2y1i 2y1j 3eyz 3po4 3po5 4b9l 4cch 4dqq 4ds4 4ds5 4dsj 4ez9 4f2r 4f2s 4f4k 4uqg 6dsx 6fbe 6fbg 6p5c 6ur2 6ur4 6ur9 6vdd 41
DNA_pol_B_thumb
(PF14791.8)
1huz 1xsp 2bcq 2bcr 2bcs 2bcu 2pfq 3mda 4klg 4klh 4kli 4klj 4kll 4klm 4klo 4nm1 4rpy 4rpz 4rq0 4rq2 4rq4 4rq5 4rq6 4rq8 4ub3 5hr9 5hrb 5hrd 5hrg 5hri 5hrl 5u9h 5ugo 5v1i 5v1o 5vrz 5vs0 5vs3 5vs4 46
Piwi
(PF02171.19)
4n41 4nca 4ncb 5xou 5xq2 5
DNA_pol_B
(PF00136.23)
3kd5 1
N6_Mtase
(PF02384.18)
5ffj 1
5_3_exonuc_N
(PF02739.18)
2ihn 1
KilA-N
(PF04383.15)
4ux5 1
Tet_JBP
(PF12851.9)
5d9y 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-binding domain of intron-encoded endonucleases
(d.285.1.1)
1i3j 1
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