Interaction mode
Mode:  H-Bb L-Bb L-Mj L-Mn 
Description: Conserved protein-DNA contacts are provided by helix(es) (H) with DNA backbone atoms (Bb), loop(s) (L) with DNA backbone atoms (Bb), loop(s) (L) with the major groove of DNA (Mj), loop(s) (L) with the minor groove of DNA (Mn).
Pfam domains
Export table
Pfam Domain Family PDB entries Number of structures
HhH-GPD
(PF00730.27)
1rrq 1rrs 1vrl 3cvs 3cvt 3cw7 3cwa 3cws 3cwt 3cwu 3d4v 3g0q 4dk9 4e9f 4e9g 4e9h 4ea4 4ejy 4ejz 4evv 4ew0 4ofa 4ofe 4ofh 4yoq 4yph 4ypr 6q0c 6u7t 44
Exo_endo_phos
(PF03372.25)
1de8 1dew 2voa 3g38 3g3c 3g4t 5dfi 5wn2 5wn4 5wn5 6boq 6bor 6bot 6w2p 6w3l 6w3n 6w3q 6w3u 6w4i 6w4t 22
DNA_topoisoIV
(PF00521.22)
3k9f 3ksa 3ltn 3rad 3rae 3raf 4i3h 4juo 4koe 4kpe 4kpf 4z2c 4z3o 21
UDG
(PF03167.21)
1emh 1emj 2oxm 2rba 3uo7 3uob 4fnc 4jgc 4xeg 4z7b 4z7z 11
DNA_methylase
(PF00145.19)
1dct 5yx2 6brr 6f57 6kda 6w89 6w8b 6w8d 6w8j 18
Eco57I
(PF07669.13)
1g38 2ibs 2ibt 2ih2 2ih4 2jg3 2np6 2np7 14
FAD_binding_7
(PF03441.16)
2wb2 2wq6 2wq7 3cvu 3cvv 3cvw 6fn0 7
Cas_Cas1
(PF01867.18)
5dqt 5ds4 5ds5 5vvj 5vvk 5vvl 8
TaqI_C
(PF12950.9)
2ih4 2np6 2np7 4
Herpes_ICP4_N
(PF03584.17)
5mhj 5mhk 6
Helicase_C
(PF00271.33)
6o8g 6o8h 4
zf-CXXC
(PF02008.22)
6asb 6asd 4
RNase_T
(PF00929.26)
4fzy 4fzz 3
Topoisom_I
(PF01028.22)
1lpq 1r49 2
MerR_1
(PF13411.8)
6jni 4
Rad51
(PF08423.13)
5h1c 3
RecA
(PF00154.23)
3cmt 2
DNA_pol_B
(PF00136.23)
6as7 1
Zn_clus
(PF00172.20)
1qp9 1
HMG_box
(PF00505.21)
5jgh 1
XPG_N
(PF00752.19)
5co8 1
Toprim
(PF01751.24)
2xcr 1
DNA_pol_B_2
(PF03175.15)
2pzs 1
UvdE
(PF03851.16)
4gle 1
SeqA
(PF03925.15)
1iu3 1
RNA_pol_I_TF
(PF04090.14)
5w5y 1
RNA_pol_Rpb1_1
(PF04997.14)
6j9e 1
HMG_box_2
(PF09011.12)
6cg0 1
AAA_23
(PF13476.8)
5f3w 1
ERCC3_RAD25_C
(PF16203.7)
6o9l 1


SCOP domains
Note: this data is based only on structures available at the moment of the last SCOP release (2009)
Export table
SCOP Domain Family PDB entries Number of structures
DNA repair glycosylase, 2 C-terminal domains
(a.96.1.3)
1m3h 1yqk 2nof 3cvs 3cvt 3cw7 3cws 3cwt 3cwu 3d4v 18
Uracil-DNA glycosylase
(c.18.1.1)
1emh 1emj 2oxm 2oyt 2ssp 5
Restriction endonuclease BamHI
(c.52.1.3)
1bhm 3bam 2
Exodeoxyribonuclease V beta chain (RecC), C-terminal domain
(c.52.1.25)
1w36 1
© NPIDB team 2003 - 2021

text