6DJK

Structure of DNA polymerase III subunit beta from Rickettsia typhi in complex with a natural product


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.211 
  • R-Value Work: 0.173 
  • R-Value Observed: 0.175 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structure of DNA polymerase III subunit beta from Rickettsia typhi in complex with a natural product

Abendroth, J.Conrady, D.G.Higgins, T.W.Lorimer, D.D.Horanyi, P.S.Edwards, T.E.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Beta sliding clamp389Rickettsia typhi str. WilmingtonMutation(s): 0 
Gene Names: dnaNRT0405
UniProt
Find proteins for Q68WW0 (Rickettsia typhi (strain ATCC VR-144 / Wilmington))
Explore Q68WW0 
Go to UniProtKB:  Q68WW0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ68WW0
Sequence Annotations
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  • Reference Sequence

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
ACE-MVA-MP8-NZC-LEU-MP8-LEU-MVA-PRO-MLU-GLY11synthetic constructMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Modified Residues  3 Unique
IDChains TypeFormula2D DiagramParent
MP8
Query on MP8
B
L-PEPTIDE LINKINGC6 H11 N O2PRO
MVA
Query on MVA
B
L-PEPTIDE LINKINGC6 H13 N O2VAL
NZC
Query on NZC
B
L-PEPTIDE LINKINGC5 H11 N O3THR
Biologically Interesting Molecules (External Reference) 1 Unique
Experimental Data & Validation

Experimental Data

Unit Cell:
Length ( Å )Angle ( ˚ )
a = 147.5α = 90
b = 43.73β = 121.46
c = 83.9γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XSCALEdata scaling
PDB_EXTRACTdata extraction
XDSdata reduction
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2019-05-29
    Type: Initial release
  • Version 1.1: 2023-10-11
    Changes: Data collection, Database references, Derived calculations, Refinement description
  • Version 1.2: 2023-11-15
    Changes: Data collection, Derived calculations