2R6A

Crystal Form BH1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.259 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structure of hexameric DnaB helicase and its complex with a domain of DnaG primase

Bailey, S.Eliason, W.K.Steitz, T.A.

(2007) Science 318: 459-463

  • DOI: 10.1126/science.1147353
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The complex between the DnaB helicase and the DnaG primase unwinds duplex DNA at the eubacterial replication fork and synthesizes the Okazaki RNA primers. The crystal structures of hexameric DnaB and its complex with the helicase binding domain (HBD) ...

    The complex between the DnaB helicase and the DnaG primase unwinds duplex DNA at the eubacterial replication fork and synthesizes the Okazaki RNA primers. The crystal structures of hexameric DnaB and its complex with the helicase binding domain (HBD) of DnaG reveal that within the hexamer the two domains of DnaB pack with strikingly different symmetries to form a distinct two-layered ring structure. Each of three bound HBDs stabilizes the DnaB hexamer in a conformation that may increase its processivity. Three positive, conserved electrostatic patches on the N-terminal domain of DnaB may also serve as a binding site for DNA and thereby guide the DNA to a DnaG active site.


    Organizational Affiliation

    Department of Molecular Biophysics and Biochemistry and Howard Hughes Medical Institute, Yale University, New Haven, CT 06520, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Replicative helicase
A, B
454Geobacillus stearothermophilusMutation(s): 0 
Gene Names: dnaB
EC: 3.6.4.12
Find proteins for Q9X4C9 (Geobacillus stearothermophilus)
Go to UniProtKB:  Q9X4C9
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
DnaG Primase, Helicase Binding Domain
C
143Geobacillus stearothermophilusMutation(s): 0 
Gene Names: dnaG
EC: 2.7.7.-
Find proteins for Q9X4D0 (Geobacillus stearothermophilus)
Go to UniProtKB:  Q9X4D0
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A, B
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
C
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.259 
  • Space Group: P 3 2 1
Unit Cell:
Length (Å)Angle (°)
a = 226.751α = 90.00
b = 226.751β = 90.00
c = 75.902γ = 120.00
Software Package:
Software NamePurpose
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling
REFMACrefinement
SOLVEphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2007-11-06
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Advisory, Refinement description, Version format compliance