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: 9.59 kDa 
• Atom Count: 672 
• Residue Count: 85 
• Unique protein chains: 1

2KV2

Solution Structure of the human BLM HRDC domain

• DOI: 10.2210/pdb2KV2/pdb

• Classification: GENE REGULATION
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-03-04 Released: 2010-12-15 
• Deposition Author(s): Kim, Y.M., Choi, B.-S.

---

Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Literature

Structure and function of the regulatory HRDC domain from human Bloom syndrome protein

Kim, Y.M., Choi, B.-S.

(2010) Nucleic Acids Res 38: 7764-7777

• PubMed: 20639533 
• DOI: 10.1093/nar/gkq586
• Primary Citation of Related Structures:  
  2KV2


• PubMed Abstract: 
  

The helicase and RNaseD C-terminal (HRDC) domain, conserved among members of the RecQ helicase family, regulates helicase activity by virtue of variations in its surface residues. The HRDC domain of Bloom syndrome protein (BLM) is known as a critical determinant of the dissolution function of double Holliday junctions by the BLM-Topoisomerase IIIα complex. In this study, we determined the solution structure of the human BLM HRDC domain and characterized its DNA-binding activity. The BLM HRDC domain consists of five α-helices with a hydrophobic 3(10)-helical loop between helices 1 and 2 and an extended acidic surface comprising residues in helices 3-5. The BLM HRDC domain preferentially binds to ssDNA, though with a markedly low binding affinity (K(d) ∼100 μM). NMR chemical shift perturbation studies suggested that the critical DNA-binding residues of the BLM HRDC domain are located in the hydrophobic loop and the N-terminus of helix 2. Interestingly, the isolated BLM HRDC domain had quite different DNA-binding modes between ssDNA and Holliday junctions in electrophoretic mobility shift assay experiments. Based on its surface charge separation and DNA-binding properties, we suggest that the HRDC domain of BLM may be adapted for a unique function among RecQ helicases--that of bridging protein and DNA interactions.

---

Organizational Affiliation: 

Department of Chemistry, KAIST, Daejon 305-701, Korea.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bloom syndrome protein	A	85	Homo sapiens	Mutation(s): 0  Gene Names: BLM, RECQ2, RECQL3 EC: 3.6.4.12
Find proteins for P54132 (Homo sapiens) Explore P54132  Go to UniProtKB:  P54132
NIH Common Fund Data Resources
PHAROS  P54132 GTEx  ENSG00000197299

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 
• OLDERADO: 2KV2 Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2010-03-04 
• Released Date: 2010-12-15 
Deposition Author(s): Kim, Y.M., Choi, B.-S.

Revision History 

• Version 1.0: 2010-12-15
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance