Interaction mode
Mode:  L-Bb L-Mn 
Description: Conserved protein-DNA contacts are provided by 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
SH3_11
(PF18103.3)
3l2r 3l2u 3l2v 3l2w 3os0 3oyh 3oyi 4bdz 4ikf 5frn 5mmb 6rny 12
RNA_pol_Rpb1_5
(PF04998.19)
1y1w 3h3v 4v1n 4v1o 6upx 6uq1 6
Toprim
(PF01751.24)
4koe 6rks 6rkv 6rkw 5
RNA_pol_Rpb2_3
(PF04565.18)
5voi 6eu1 6xav 7c17 4
DNA_pol_B
(PF00136.23)
2oyq 3rmd 3tag 3
TFIIF_beta
(PF02270.17)
5iy9 5iyd 6o9l 3
DNA_pol_B_thumb
(PF14791.8)
4m9g 4ppx 4r66 3
RNase_H
(PF00075.26)
3kk2 3kk3 2
RNA_pol_Rpb2_6
(PF00562.30)
5oa1 6ruo 2
Ku
(PF02735.18)
6erh 6zha 2
ResIII
(PF04851.17)
5ivw 5iy8 2
HMG_box_2
(PF09011.12)
6erp 6erq 2
DNA_pol3_finger
(PF17657.3)
3f2b 3f2c 2
TCR
(PF03638.17)
5fd3 3
7kD_DNA_binding
(PF02294.20)
1bbx 2
DNA_gyraseA_C
(PF03989.15)
6rkw 2
RVT_1
(PF00078.29)
1j5o 1
Metallophos
(PF00149.30)
3dsd 1
DNA_pol_A
(PF00476.22)
6p7e 1
PWWP
(PF00855.19)
6iit 1
GIY-YIG
(PF01541.26)
6sei 1
Cas_Cas1
(PF01867.18)
5wfe 1
Hjc
(PF01870.20)
2wiz 1
NTP_transf_2
(PF01909.25)
2m2w 1
NusG
(PF02357.21)
6c6s 1
N6_Mtase
(PF02384.18)
5ffj 1
Ada_Zn_binding
(PF02805.18)
1u8b 1
Ku_N
(PF03731.17)
6erh 1
Dimer_Tnp_hAT
(PF05699.16)
6dwz 1
2OG-FeII_Oxy_2
(PF13532.8)
6ksf 1
RPOL_N
(PF14700.8)
3e3j 1
MSL2-CXC
(PF16682.7)
4rkh 1
SRA
(PF18491.3)
4par 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
Nucleosome core histones
(a.22.1.1)
1kx3 1kx5 3b6f 3b6g 7
Phage repressors
(a.35.1.2)
3orc 1
Restriction endonuclease BamHI
(c.52.1.3)
1esg 1
"Histone-like" proteins from archaea
(b.34.13.1)
1bbx 2
Classic zinc finger, C2H2
(g.37.1.1)
1un6 1
DNA-binding domains of HMG-I(Y)
(j.10.1.1)
2ezd 1
© NPIDB team 2003 - 2021

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