Interaction mode
Mode:  H-Bb H-Mj 
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).
Pfam domains
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Pfam Domain Family PDB entries Number of structures
zf-H2C2_2
(PF13465.8)
1a1f 1a1h 1a1l 1f2i 1p47 1ubd 2jp9 2jpa 2prt 2wbu 4f6m 4r2c 4r2s 5ke6 5ke7 5ke8 5ke9 5kea 5keb 5vmv 5vmw 5vmy 5wjq 5yef 5yel 6b0p 6b0q 6b0r 6dfa 6dfc 6ki6 6v8u 35
HLH
(PF00010.28)
1hlo 1mdy 1nkp 2ql2 2ypa 2ypb 4ati 4atk 4zpr 5gnj 5i50 5nj8 5sy7 5v0l 6od3 6od4 6od5 43
bZIP_2
(PF07716.17)
1gtw 1gu4 1gu5 1h88 1h89 1h8a 1hjb 1io4 1ysa 2c9l 2e42 2e43 6mg1 6mg2 6mg3 34
Taxilin
(PF09728.11)
1gtw 1gu4 1gu5 1h88 1h89 1h8a 1hjb 1io4 2e42 2e43 6mg1 6mg2 6mg3 20
SRF-TF
(PF00319.20)
1c7u 1egw 1k6o 1mnm 1n6j 1tqe 3p57 6bz1 6wc2 6wc5 28
Homeodomain
(PF00046.31)
1nk3 1o4x 1zq3 4xid 5ego 5z2t 6dfy 6ryl 6wc2 6wc5 14
Sigma70_r3
(PF04539.18)
4xlq 5tw1 5vi8 6cce 6ccv 6dcf 6vvs 6vvt 6vvv 6vw0 10
bZIP_1
(PF00170.23)
1a02 1fos 1jnm 1s9k 1t2k 2h7h 2wt7 5vpe 5vpf 22
Sigma70_r2
(PF04542.16)
4xls 5zx2 6b6h 6jbq 6n60 6pb4 6pb5 6vvz 11
z-alpha
(PF02295.19)
2acj 2heo 3irq 4ka4 5zu1 5zuo 5zup 22
HHH_8
(PF14716.8)
4klg 4kli 4klj 5iil 5v1i 5vs3 5vs4 7
Histone
(PF00125.26)
3kxb 3w96 5b40 5cpj 6i84 6ltj 14
bZIP_Maf
(PF03131.19)
1skn 2wt7 2wty 3a5t 4auw 4eot 12
Sigma70_r4
(PF04545.18)
6bzo 6ca0 6wrd 6wrg 7khb 7khe 6
TetR_N
(PF00440.25)
4gcl 4pxi 5h58 5k7z 5vl9 7
HTH_ParB
(PF17762.3)
4umk 6t1f 6y93 6
Myb_DNA-bind_6
(PF13921.8)
1h8a 3osf 3osg 4
RNA_pol_Rpb1_1
(PF04997.14)
2o5i 5x22 6c04 3
Integrase_Zn
(PF02022.21)
3jca 5ejk 3
Phage_antitermQ
(PF06530.14)
6p18 6p1a 3
Myb_DNA-binding
(PF00249.33)
3zqc 5eyb 2
Forkhead
(PF00250.20)
3qrf 5dui 2
DNA_gyraseB_C
(PF00986.23)
2xcr 4z3o 2
RNA_pol_Rpb2_1
(PF04563.17)
6alh 6h68 2
HTH_Crp_2
(PF13545.8)
6b6h 6pb5 2
GerE
(PF00196.21)
1h0m 4
BES1_N
(PF05687.15)
5zd4 4
HTH_24
(PF13412.8)
5f7q 4
PhdYeFM_antitox
(PF02604.21)
6l8e 3
MatP
(PF06303.14)
4d8j 3
zf-C4
(PF00105.20)
6bse 1
Pou
(PF00157.19)
3d1n 1
HTH_AraC
(PF00165.25)
1zgw 1
Ets
(PF00178.24)
2stw 1
Bac_DNA_binding
(PF00216.23)
6o8q 1
Transposase_mut
(PF00872.20)
6xgw 1
TFIIF_beta
(PF02270.17)
5fyw 1
ERCC4
(PF02732.17)
4p0r 1
RNA_pol_Rpb2_3
(PF04565.18)
6koo 1
Homeobox_KN
(PF05920.13)
5ego 1
TF_Zn_Ribbon
(PF08271.14)
6f40 1
Sigma70_r4_2
(PF08281.14)
6jbq 1
ParB
(PF08775.12)
3w3c 1
DBD_Tnp_Hermes
(PF10683.11)
4d1q 1
HTH_18
(PF12833.9)
1d5y 1
Topo_C_assoc
(PF14370.8)
1a35 1
FANC_SAP
(PF18081.3)
4r89 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
Leucine zipper domain
(h.1.3.1)
1a02 1dgc 1dh3 1fos 1gd2 1h88 1h89 1h8a 1hjb 1io4 1jnm 1nwq 1s9k 1t2k 1ysa 2c9l 2c9n 2dgc 2e42 2e43 2h7h 40
HLH, helix-loop-helix DNA-binding domain
(a.38.1.1)
1am9 1hlo 1mdy 1nkp 1nlw 12
Classic zinc finger, C2H2
(g.37.1.1)
1a1g 1a1k 1jk2 1tf6 5
GerE-like (LuxR/UhpA family of transcriptional regulators)
(a.4.6.2)
1h0m 1l3l 5
Eukaryotic DNA topoisomerase I, dispensable insert domain
(a.2.8.1)
1rrj 1
Homeodomain
(a.4.1.1)
1o4x 1
Myb/SANT domain
(a.4.1.3)
2qhb 1
AraC type transcriptional activator
(a.4.1.8)
1bl0 1
CAP C-terminal domain-like
(a.4.5.4)
2cgp 1
A DNA-binding domain in eukaryotic transcription factors
(a.37.1.1)
1skn 1
MarR-like transcriptional regulators
(a.4.5.28)
1fzp 1
Eukaryotic DNA topoisomerase I, catalytic core
(d.163.1.2)
1a36 1
Nuclear receptor
(g.39.1.2)
1glu 1
© NPIDB team 2003 - 2021

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