Interaction mode
Mode:  H-Bb L-Bb L-Mj 
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).
Pfam domains
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Pfam Domain Family PDB entries Number of structures
Cas_Cas1
(PF01867.15)
5ds4 5ds5 5vvj 5vvk 5vvl 5xvp 10
TAL_effector
(PF03377.12)
4osj 3ugm 4osi 4osh 4osk 25
zf-CXXC
(PF02008.19)
3qmb 6asd 3qmc 3
MethyltransfD12
(PF02086.14)
4rts 4rtl 4rto 3
Dimer_Tnp_Tn5
(PF02281.15)
1muh 4dm0 1mm8 3
zf-C2H2
(PF00096.25)
5k5l 5yel 3
RHD_DNA_bind
(PF00554.21)
1gji 1imh 3
Zn_clus
(PF00172.17)
1qp9 1
LacI
(PF00356.20)
2kek 1
TFIIB
(PF00382.18)
5iya 1
HSF_DNA-bind
(PF00447.16)
5hdn 1
MCM
(PF00493.22)
6f0l 1
MarR
(PF01047.21)
5hso 1
RNase_HII
(PF01351.17)
3o3g 1
Methylase_S
(PF01420.18)
5ybb 1
T_Ag_DNA_bind
(PF02217.15)
3qfq 1
MazE_antitoxin
(PF04014.17)
5l6l 1
RNA_pol_Rpb2_1
(PF04563.14)
5m5x 1
Phi-29_GP4
(PF05464.10)
2fio 1
HTH_17
(PF12728.6)
6ama 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 repair glycosylase, 2 C-terminal domains
(a.96.1.3)
1diz 2noz 3cvs 3cvt 3cwt 3d4v 6
Rel/Dorsal transcription factors, DNA-binding domain
(b.2.5.3)
1imh 1lei 3
Restriction endonuclease BamHI
(c.52.1.3)
1bhm 2bam 2
Zn2/Cys6 DNA-binding domain
(g.38.1.1)
1qp9 1zme 2
GalR/LacI-like bacterial regulator
(a.35.1.5)
1wet 1
Transcription factor IIB (TFIIB), core domain
(a.74.1.2)
1c9b 3
Mismatch glycosylase
(a.96.1.2)
1rrs 1
Restriction endonuclease PvuII
(c.52.1.6)
2pvi 1
Replication modulator SeqA, C-terminal DNA-binding domain
(d.228.1.1)
1iu3 2
© NPIDB team 2003 - 2019

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