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: 27.03 kDa 
• Atom Count: 1803 
• Residue Count: 225 
• Unique protein chains: 1

2L5A

Structural basis for recognition of centromere specific histone H3 variant by nonhistone Scm3

• DOI: 10.2210/pdb2L5A/pdb

• Classification: NUCLEAR PROTEIN
• Organism(s): Saccharomyces cerevisiae
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2010-10-28 Released: 2011-03-16 
• Deposition Author(s): Zhou, Z., Feng, H., Zhou, B., Ghirlando, R., Hu, K., Zwolak, A., Jenkins, L., Xiao, H., Tjandra, N., Wu, C., Bai, Y.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 50 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Literature

Structural basis for recognition of centromere histone variant CenH3 by the chaperone Scm3.

Zhou, Z., Feng, H., Zhou, B.R., Ghirlando, R., Hu, K., Zwolak, A., Miller Jenkins, L.M., Xiao, H., Tjandra, N., Wu, C., Bai, Y.

(2011) Nature 472: 234-237

• PubMed: 21412236 
• DOI: 10.1038/nature09854
• Primary Citation of Related Structures:  
  2L5A


• PubMed Abstract: 
  

The centromere is a unique chromosomal locus that ensures accurate segregation of chromosomes during cell division by directing the assembly of a multiprotein complex, the kinetochore. The centromere is marked by a conserved variant of conventional histone H3 termed CenH3 or CENP-A (ref. 2). A conserved motif of CenH3, the CATD, defined by loop 1 and helix 2 of the histone fold, is necessary and sufficient for specifying centromere functions of CenH3 (refs 3, 4). The structural basis of this specification is of particular interest. Yeast Scm3 and human HJURP are conserved non-histone proteins that interact physically with the (CenH3-H4)(2) heterotetramer and are required for the deposition of CenH3 at centromeres in vivo. Here we have elucidated the structural basis for recognition of budding yeast (Saccharomyces cerevisiae) CenH3 (called Cse4) by Scm3. We solved the structure of the Cse4-binding domain (CBD) of Scm3 in complex with Cse4 and H4 in a single chain model. An α-helix and an irregular loop at the conserved amino terminus and a shorter α-helix at the carboxy terminus of Scm3(CBD) wraps around the Cse4-H4 dimer. Four Cse4-specific residues in the N-terminal region of helix 2 are sufficient for specific recognition by conserved and functionally important residues in the N-terminal helix of Scm3 through formation of a hydrophobic cluster. Scm3(CBD) induces major conformational changes and sterically occludes DNA-binding sites in the structure of Cse4 and H4. These findings have implications for the assembly and architecture of the centromeric nucleosome.

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Organizational Affiliation: 

Laboratory of Biochemistry and Molecular Biology, National Cancer Institute, Bethesda, Maryland 20892, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Histone H3-like centromeric protein CSE4, Protein SCM3, Histone H4	A	235	Saccharomyces cerevisiae	Mutation(s): 0  Gene Names:  CSE4, CSL2, YKL049C, YKL262, SCM3, YDL139C, D2155, HHF1, YBR009C, YBR0122, HHF2, YNL030W, N2752
Find proteins for Q12334 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q12334  Go to UniProtKB:  Q12334
Find proteins for P36012 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P36012  Go to UniProtKB:  P36012
Find proteins for P02309 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P02309  Go to UniProtKB:  P02309

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 50 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 
• OLDERADO: 2L5A Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2010-10-28 
• Released Date: 2011-03-16 
Deposition Author(s): Zhou, Z., Feng, H., Zhou, B., Ghirlando, R., Hu, K., Zwolak, A., Jenkins, L., Xiao, H., Tjandra, N., Wu, C., Bai, Y.

Revision History 

• Version 1.0: 2011-03-16
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance