Interaction mode
Mode:  H-Bb S-Bb S-Mj L-Bb L-Mj 
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), 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
Export table
Pfam Domain Family PDB entries Number of structures
LAGLIDADG_1
(PF00961.18)
4aqx 4aaf 4lox 4aag 4efj 4aqu 4aae 2vbn 2vbo 3fd2 3ko2 3qqy 3r7p 4aab 4aad 3eh8 4lq0 4z20 5e5s 5a74 5a77 5a78 5e5o 5e63 5e67 5esp 4yhx 4yis 4yit 4z1x 4z1z 1n3f 1m5x 1t9j 1g9z 1u0c 1g9y 2ex5 2fld 1t9i 1n3e 1mow 1p8k 2i3p 2qoj 2vbj 2vbl 2i3q 1bp7 106
LAGLIDADG_3
(PF14528.5)
4un9 4un8 4un7 5ak9 5o6g 2vs7 4ut0 4una 5o6i 1mow 5akf 5akm 5a0w 5akn 4d6n 4d6o 35
Endonuc-EcoRV
(PF09233.10)
1bgb 1az0 2b0d 1eoo 5f8a 1b97 1rv5 1rvb 1rva 14
T_Ag_DNA_bind
(PF02217.15)
4gdf 4fb3 2ntc 2itl 3qfq 4fgn 9
MH1
(PF03165.15)
3qsv 1ozj 5x6m 5mez 3kmp 6
RHD_DNA_bind
(PF00554.21)
2as5 1vkx 1owr 5u01 5
MazE_antitoxin
(PF04014.17)
3zvk 5l6l 2mru 9
LAGLIDADG_2
(PF03161.12)
5a0m 3c0x 1r7m 3
PPV_E1_C
(PF00519.16)
1ksx 1ksy 6
LytTR
(PF04397.14)
4xyq 4xqq 2
B3
(PF02362.20)
5z00 2
AP2
(PF00847.19)
1gcc 1
MBD
(PF01429.18)
6c1v 1
N6_N4_Mtase
(PF01555.17)
4zcf 1
Topoisom_I_N
(PF02919.14)
1t8i 1
BamHI
(PF02923.14)
2bam 1
GCM
(PF03615.14)
1odh 1
Arc
(PF03869.13)
1bdt 1
Hom_end
(PF05204.13)
1lwt 1
AFT
(PF08731.10)
4lmg 1
Arm-DNA-bind_1
(PF09003.9)
1z1g 1
Endonuc-MspI
(PF09208.9)
1yfi 1
IMS_C
(PF11799.7)
1t3n 1
Zn_ribbon_recom
(PF13408.5)
4kis 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
Restriction endonuclease EcoRV
(c.52.1.2)
1az0 1b97 1bgb 1bua 1eo3 1eo4 1eon 1eoo 1rv5 1rva 1rvb 1rvc 1stx 1suz 1sx8 2b0d 2b0e 23
Group I mobile intron endonuclease
(d.95.2.1)
1bp7 1g9y 1g9z 1m5x 1mow 1n3e 1n3f 1p8k 1r7m 1t9i 1t9j 1u0c 1u0d 37
Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
(e.15.1.1)
1rrj 1seu 1t8i 3
Arc/Mnt-like phage repressors
(a.43.1.1)
1bdt 1par 2
Rel/Dorsal transcription factors, DNA-binding domain
(b.2.5.3)
1owr 1vkx 3
Trafficking protein A-like
(a.43.1.8)
2bsq 2h1o 4
Intein endonuclease
(d.95.2.2)
1lwt 1
SMAD MH1 domain
(d.164.1.1)
1ozj 1
Restriction endonuclease HincII
(c.52.1.19)
1xhu 1
Restriction endonuclease MspI
(c.52.1.23)
1yfi 1
© NPIDB team 2003 - 2019

text