Biological Assembly 1  

 3D View: Structure

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 10.53 kDa 
• Atom Count: 739 
• Residue Count: 91 
• Unique protein chains: 2

1GUW

STRUCTURE OF THE CHROMODOMAIN FROM MOUSE HP1beta IN COMPLEX WITH THE LYSINE 9-METHYL HISTONE H3 N-TERMINAL PEPTIDE, NMR, 25 STRUCTURES

• DOI: 10.2210/pdb1GUW/pdb

• Classification: CHROMATIN-BINDING
• Organism(s): Mus musculus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2002-02-01 Released: 2002-03-12 
• Deposition Author(s): Nielsen, P.R., Nietlispach, D., Mott, H.R., Callaghan, J.M., Bannister, A., Kouzarides, T., Murzin, A.G., Murzina, N.V., Laue, E.D.

---

Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 25 
• Selection Criteria: LOWEST ENERGY OF 75 CONVERGED STRUCTURES 

Literature

Structure of the Hp1 Chromodomain Bound to Histone H3 Methylated at Lysine 9

Nielsen, P.R., Nietlispach, D., Mott, H.R., Callaghan, J.M., Bannister, A., Kouzarides, T., Murzin, A.G., Murzina, N.V., Laue, E.D.

(2002) Nature 416: 103-107

• PubMed: 11882902 
• DOI: 10.1038/nature722
• Primary Citation of Related Structures:  
  1GUW


• PubMed Abstract: 
  

Specific modifications to histones are essential epigenetic markers---heritable changes in gene expression that do not affect the DNA sequence. Methylation of lysine 9 in histone H3 is recognized by heterochromatin protein 1 (HP1), which directs the binding of other proteins to control chromatin structure and gene expression. Here we show that HP1 uses an induced-fit mechanism for recognition of this modification, as revealed by the structure of its chromodomain bound to a histone H3 peptide dimethylated at Nzeta of lysine 9. The binding pocket for the N-methyl groups is provided by three aromatic side chains, Tyr21, Trp42 and Phe45, which reside in two regions that become ordered on binding of the peptide. The side chain of Lys9 is almost fully extended and surrounded by residues that are conserved in many other chromodomains. The QTAR peptide sequence preceding Lys9 makes most of the additional interactions with the chromodomain, with HP1 residues Val23, Leu40, Trp42, Leu58 and Cys60 appearing to be a major determinant of specificity by binding the key buried Ala7. These findings predict which other chromodomains will bind methylated proteins and suggest a motif that they recognize.

---

Related Citations: 

• Structure of the Chromatin Binding (Chromo) Domain from Mouse Modifier Protein 1
  Ball, L.J., Murzina, N.V., Broadhurst, R.W., Raine, A.R., Archer, S.J., Stott, F.J., Murzin, A.G., Singh, P.B., Domaille, P.J., Laue, E.D.
  (1997) EMBO J 16: 2437

---

Organizational Affiliation: 

Cambridge Centre for Molecular Recognition, Department of Biochemistry, University of Cambridge, 80 Tennis Court Road, Cambridge CB2 1GA, UK.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CHROMOBOX PROTEIN HOMOLOG 1	A	73	Mus musculus	Mutation(s): 0  Gene Names: Cbx1, Cbx
Find proteins for P83917 (Mus musculus) Explore P83917  Go to UniProtKB:  P83917
NIH Common Fund Data Resources
IMPC  MGI:105369

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
HISTONE H3.1	B	18	Mus musculus	Mutation(s): 0  Gene Names:  H3c1, H3a, Hist1h3a, H3c8, H3.1-221, H3g, Hist1h3g, H3c10, H3.1-291, H3h, Hist1h3h, H3c11, H3.1-I, H3i, Hist1h3i
Find proteins for P68433 (Mus musculus) Explore P68433  Go to UniProtKB:  P68433

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MLY	B	L-PEPTIDE LINKING	C8 H18 N2 O2		LYS

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 25 
• Selection Criteria: LOWEST ENERGY OF 75 CONVERGED STRUCTURES 
• OLDERADO: 1GUW Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-02-01 
• Released Date: 2002-03-12 
Deposition Author(s): Nielsen, P.R., Nietlispach, D., Mott, H.R., Callaghan, J.M., Bannister, A., Kouzarides, T., Murzin, A.G., Murzina, N.V., Laue, E.D.

Revision History 

• Version 1.0: 2002-03-12
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2018-01-17
  Changes: Database references