1MSE

SOLUTION STRUCTURE OF A SPECIFIC DNA COMPLEX OF THE MYB DNA-BINDING DOMAIN WITH COOPERATIVE RECOGNITION HELICES


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 25 
  • Conformers Submitted: 
  • Selection Criteria: structures with the least restraint violations,structures with the lowest energy 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Solution structure of a specific DNA complex of the Myb DNA-binding domain with cooperative recognition helices.

Ogata, K.Morikawa, S.Nakamura, H.Sekikawa, A.Inoue, T.Kanai, H.Sarai, A.Ishii, S.Nishimura, Y.

(1994) Cell 79: 639-648

  • Primary Citation of Related Structures:  1MSF

  • PubMed Abstract: 
  • The DNA-binding region of Myb consists of three imperfect tandem repeats (R1, R2, and R3). We have determined the solution structure of a specific DNA complex of the minimum DNA-binding domain (R2R3) by heteronuclear multidimensional NMR. Both R2 and ...

    The DNA-binding region of Myb consists of three imperfect tandem repeats (R1, R2, and R3). We have determined the solution structure of a specific DNA complex of the minimum DNA-binding domain (R2R3) by heteronuclear multidimensional NMR. Both R2 and R3 contain three helices, and the third helix in each is found to be a recognition helix. R2 and R3 are closely packed in the major groove, so that the two recognition helices contact each other directly to bind to the specific base sequence, AACNG cooperatively; this is a significant arrangement of recognition helices. The three key base pairs in this sequence are specifically recognized by Asn-183 (R3), Lys-182 (R3), and Lys-128 (R2). In contrast, R1 has no specific interactions with DNA from our NMR study of the DNA complex of the full DNA-binding domain (R1R2R3).


    Related Citations: 
    • Solution Structure of a DNA-Binding Unit of Myb: A Helix-Turn-Helix-Related Motif with Conserved Tryptophans Forming a Hydrophobic Core
      Ogata, K.,Hojo, H.,Aimoto, S.,Nakai, T.,Nakamura, H.,Sarai, A.,Ishii, S.,Nishimura, Y.
      (1992) Proc.Natl.Acad.Sci.USA 89: 6428


    Organizational Affiliation

    Graduate School of Integrated Science, Yokohama City University, Japan.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
C-Myb DNA-Binding Domain
C
105Mus musculusGene Names: Myb
Find proteins for P06876 (Mus musculus)
Go to UniProtKB:  P06876
Entity ID: 1
MoleculeChainsLengthOrganism
DNA (5'-D(*CP*CP*TP*AP*AP*CP*TP*GP*AP*CP*AP*CP*AP*CP*AP*T)-3')A16N/A
Entity ID: 2
MoleculeChainsLengthOrganism
DNA (5'-D(*AP*TP*GP*TP*GP*TP*GP*TP*CP*AP*GP*TP*TP*AP*GP*G)-3')B16N/A
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 25 
  • Conformers Submitted: 
  • Selection Criteria: structures with the least restraint violations,structures with the lowest energy 
Software Package:
Software NamePurpose
AMBERrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1995-03-31
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance