4CGZ

Crystal structure of the Bloom's syndrome helicase BLM in complex with DNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.229 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal Structure of the Bloom'S Syndrome Helicase Indicates a Role for the Hrdc Domain in Conformational Changes.

Newman, J.A.Savitsky, P.Allerston, C.K.Bizard, A.H.Ozer, O.Sarlos, K.Liu, Y.Pardon, E.Steyaert, J.Hickson, I.D.Gileadi, O.

(2015) Nucleic Acids Res. 43: 5221

  • DOI: 10.1093/nar/gkv373
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Bloom's syndrome helicase (BLM) is a member of the RecQ family of DNA helicases, which play key roles in the maintenance of genome integrity in all organism groups. We describe crystal structures of the BLM helicase domain in complex with DNA and wit ...

    Bloom's syndrome helicase (BLM) is a member of the RecQ family of DNA helicases, which play key roles in the maintenance of genome integrity in all organism groups. We describe crystal structures of the BLM helicase domain in complex with DNA and with an antibody fragment, as well as SAXS and domain association studies in solution. We show an unexpected nucleotide-dependent interaction of the core helicase domain with the conserved, poorly characterized HRDC domain. The BLM-DNA complex shows an unusual base-flipping mechanism with unique positioning of the DNA duplex relative to the helicase core domains. Comparison with other crystal structures of RecQ helicases permits the definition of structural transitions underlying ATP-driven helicase action, and the identification of a nucleotide-regulated tunnel that may play a role in interactions with complex DNA substrates.


    Organizational Affiliation

    Structural Genomics Consortium, University of Oxford, ORCRB, Roosevelt Drive, Oxford OX3 7DQ, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
BLOOM'S SYNDROME HELICASE
A
665Homo sapiensMutation(s): 0 
Gene Names: BLM (RECQ2, RECQL3)
EC: 3.6.4.12
Find proteins for P54132 (Homo sapiens)
Go to Gene View: BLM
Go to UniProtKB:  P54132
Entity ID: 2
MoleculeChainsLengthOrganism
5'-D(*AP*GP*CP*GP*TP*CP*GP*AP*GP*AP*TP*CP)-3'B12synthetic construct
Entity ID: 3
MoleculeChainsLengthOrganism
5'-D(*GP*AP*TP*CP*TP*CP*GP*AP*CP*GP*CP*TP*CP*DT *CP*CP*CP)-3'C17synthetic construct
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
ADP
Query on ADP

Download SDF File 
Download CCD File 
A
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.229 
  • Space Group: P 42
Unit Cell:
Length (Å)Angle (°)
a = 149.530α = 90.00
b = 149.530β = 90.00
c = 64.060γ = 90.00
Software Package:
Software NamePurpose
XDSdata scaling
PHENIXrefinement
PHASERphasing
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-12-11
    Type: Initial release
  • Version 1.1: 2015-05-06
    Type: Database references
  • Version 1.2: 2015-06-10
    Type: Database references