Interaction class
Class:  H-Bb H-Mj L-Bb 
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), loop(s) (L) with DNA backbone atoms (Bb).
Export table
SCOP Domain Family Number of structures Number of domains Interaction modes Ax-bend MnG width MnG depth MjG width MjG depth
Homeodomain
(a.4.1.1)
58 19  H-Bb H-Mj 
 H-Bb H-Mj L-Bb 
 H-Bb H-Mj L-Bb L-Mn 
 H-Bb H-Mj L-Mj 
 H-Bb H-Mj L-Mn 
1.1 (0.4–2.5) 5.9 (4.3–7.9) 4.8 (4.0–5.5) 12.5 (11.3–15.2) 4.5 (0.5–6.6)
Nuclear receptor
(g.39.1.2)
46 12  H-Bb H-Mj 
 H-Bb H-Mj H-Mn L-Bb 
 H-Bb H-Mj L-Bb 
 H-Bb H-Mj L-Bb L-Mj 
 H-Bb H-Mj S-Bb L-Bb 
 H-Bb H-Mj S-Bb L-Bb L-Mn 
 H-Bb H-Mj S-Bb S-Mj L-Bb 
 H-Bb H-Mj S-Bb S-Mj L-Bb L-Mn 
0.9 (0.2–2.0) 6.5 (4.2–7.6) 4.8 (4.5–5.2) 12.3 (12.0–12.8) 4.0 (2.0–5.8)
Phage repressors
(a.35.1.2)
24 5  H-Bb H-Mj L-Bb 
 H-Bb H-Mj L-Bb L-Mj 
 L-Bb L-Mn 
1.8 (1.0–2.6) 7.1 (5.9–8.2) 4.6 (4.3–4.9) 12.5 (11.8–13.6) 4.2 (2.4–5.5)
ets domain
(a.4.5.21)
20 7  H-Bb H-Mj L-Bb 
 H-Bb H-Mj S-Bb L-Bb 
 H-Bb H-Mj S-Bb L-Bb L-Mn 
 L-Bb 
0.9 (0.5–1.5) 8.2 (7.3–10.5) 3.8 (3.0–4.4) 13.6 6.3
Interferon regulatory factor
(a.4.5.23)
18 3  H-Bb H-Mj L-Bb 
 H-Bb H-Mj S-Bb L-Bb 
 H-Bb H-Mj S-Bb L-Bb L-Mn 
1.6 (0.3–2.8) 5.8 (3.6–7.6) 5.2 (5.0–5.4) 11.0 (10.5–11.4) 5.1 (4.9–5.3)
Myb/SANT domain
(a.4.1.3)
14 6  H-Bb H-Mj 
 H-Bb H-Mj L-Bb 
 H-Bb H-Mj L-Bb L-Mj 
 H-Bb L-Bb 
0.5 (0.1–0.6) 6.4 4.5
POU-specific domain
(a.35.1.1)
12 3  H-Bb H-Mj L-Bb 
 H-Bb H-Mj L-Bb L-Mj 
0.8 (0.7–0.9) 9.8 0.6 11.4 1.2
Replication initiation protein
(a.4.5.10)
8 4  H-Bb H-Mj L-Bb L-Mj 
 H-Bb H-Mj S-Bb L-Bb 
 H-Bb H-Mj S-Bb L-Bb L-Mn 
0.7 (0.4–1.1) 7.5 4.6 12.5 5.6
All SCOP domain families with determined protein-DNA interaction classes
© NPIDB team 2003 - 2017

text