Interaction class
Class:  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 families with interaction class  H-Bb L-Bb L-Mj 
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Pfam Domain Family Number of structures Number of domains Interaction modes
RHD_DNA_bind
(PF00554.21)
64 9  H-Bb H-Mj S-Bb S-Mj L-Bb L-Mj 
 H-Bb H-Mj S-Mj L-Bb L-Mj 
 H-Bb L-Bb L-Mj 
 H-Bb S-Bb S-Mj L-Bb L-Mj L-Mn 
 H-Bb S-Mj L-Bb L-Mj 
Topoisom_I
(PF01028.19)
17 4  H-Bb H-Mj H-Mn L-Bb L-Mj 
 H-Bb H-Mj H-Mn L-Bb L-Mj L-Mn 
 H-Bb H-Mn L-Bb L-Mj 
 H-Bb S-Bb L-Bb L-Mj L-Mn 
All Pfam and SCOP domain families with determined protein-DNA interaction classes
SCOP families with interaction class  H-Bb L-Bb L-Mj 
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 Number of structures Number of domains Interaction modes Ax-bend MnG width MnG depth MjG width MjG depth
Rel/Dorsal transcription factors, DNA-binding domain
(b.2.5.3)
54 8  H-Bb H-Mj L-Bb L-Mj 
 H-Bb H-Mj L-Bb L-Mj L-Mn 
 H-Bb H-Mj S-Bb L-Bb L-Mj 
 H-Bb H-Mj S-Bb L-Bb L-Mj L-Mn 
 H-Bb H-Mj S-Bb S-Mj L-Bb L-Mj 
 H-Bb H-Mj S-Bb S-Mj L-Mj 
 H-Bb L-Bb L-Mj 
 H-Bb S-Bb L-Bb L-Mj 
 H-Bb S-Bb L-Bb L-Mj L-Mn 
 H-Bb S-Bb S-Mj L-Bb L-Mj 
 L-Bb L-Mj 
 L-Mj 
 S-Bb S-Mj L-Bb 
 S-Bb S-Mj L-Bb L-Mj 
 S-Mj L-Bb L-Mj 
1.2 (0.6–1.8) 5.0 (3.6–5.8) 5.3 (5.1–5.5) 12.1 (11.5–12.7) 4.4 (3.8–5.0)
All Pfam and SCOP domain families with determined protein-DNA interaction classes
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