Biological Assembly 1  

 3D View: Structure

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 6300.35 
• Atom Count: 445 
• Residue Count: 53 
• Unique protein chains: 1

1MBG

MOUSE C-MYB DNA-BINDING DOMAIN REPEAT 2

• DOI: 10.2210/pdb1MBG/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Mus musculus


• Deposited: 1995-05-19 Released: 1995-07-31 
• Deposition Author(s): Ogata, K., Morikawa, S., Nakamura, H., Hojo, H., Yoshimura, S., Zhang, R., Aimoto, S., Ametani, Y., Hirata, Z., Sarai, A., Ishii, S., Nishimura, Y.

---

Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Submitted: 1 

Literature

Comparison of the free and DNA-complexed forms of the DNA-binding domain from c-Myb.

Ogata, K., Morikawa, S., Nakamura, H., Hojo, H., Yoshimura, S., Zhang, R., Aimoto, S., Ametani, Y., Hirata, Z., Sarai, A., Ishii, S., Nishimura, Y.

(1995) Nat.Struct.Mol.Biol. 2: 309-320

• PubMed: 7796266 
• Primary Citation of Related Structures:  
  1MBK, 1MBJ, 1MBH, 1MBF, 1MBE


• PubMed Abstract: 
  

The DNA-binding domain of c-Myb consists of three imperfect tandem repeats (R1, R2 and R3). The three repeats have similar overall architectures, each containing a helix-turn-helix variation motif. The three conserved tryptophans in each repeat participate in forming a hydrophobic core. Comparison of the three repeat structures indicated that cavities are found in the hydrophobic core of R2, which is thermally unstable. On complexation with DNA, the orientations of R2 and R3 are fixed by tight binding and their conformations are slightly changed. No significant changes occur in the chemical shifts of R1 consistent with its loose interaction with DNA.

---

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
• 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




---

Organizational Affiliation: 

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

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
MYB PROTO-ONCOGENE PROTEIN	A	53	Mus musculus	Mutation(s): 0  Gene Names: Myb
Find proteins for P06876 (Mus musculus) Go to UniProtKB:  P06876

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
NH2	A	NON-POLYMER	H2 N		--

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Submitted: 1 

Software Package:

Software Name	Purpose
AMBER	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1995-05-19 
• Released Date: 1995-07-31 
• Deposition Author(s): Ogata, K., Morikawa, S., Nakamura, H., Hojo, H., Yoshimura, S., Zhang, R., Aimoto, S., Ametani, Y., Hirata, Z., Sarai, A., Ishii, S., Nishimura, Y.

Revision History 

• Version 1.0: 1995-07-31
  Type: Initial release
• Version 1.1: 2008-03-24
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2012-02-29
  Type: Database references