6DEG

Crystal structure of a DNA polymerase III subunit beta DnaN sliding clamp from Bartonella birtlesii LL-WM9

PDB DOI: https://doi.org/10.2210/pdb6DEG/pdb

Classification: DNA BINDING PROTEIN
Organism(s): Bartonella birtlesii LL-WM9
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2018-05-11 Released: 2018-05-30
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.45 Å
R-Value Free: 0.257
R-Value Work: 0.215
R-Value Observed: 0.219

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Crystal structure of a DNA polymerase III subunit beta DnaN sliding clamp from Bartonella birtlesii LL-WM9

Edwards, T.E., Abendroth, J., Lorimer, D.D., Horanyi, P.S., Seattle Structural Genomics Center for Infectious Disease (SSGCID)

To be published.

Macromolecule Content

Total Structure Weight: 84.68 kDa
Atom Count: 5,161
Modelled Residue Count: 700
Deposited Residue Count: 762
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta sliding clamp	A, B	381	Bartonella birtlesii LL-WM9	Mutation(s): 0 Gene Names: ME7_01154
UniProt
Find proteins for J1IY24 (Bartonella birtlesii LL-WM9) Explore J1IY24 Go to UniProtKB: J1IY24
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	J1IY24
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.45 Å
R-Value Free: 0.257
R-Value Work: 0.215
R-Value Observed: 0.219
Space Group: P 1 2₁ 1
Diffraction Data: https://doi.org/10.18430/M36DEG

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.51	α = 90
b = 157.67	β = 110.81
c = 53.54	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2018-05-30

Deposition Author(s):

Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History (Full details and data files)

Version 1.0: 2018-05-30
Type: Initial release
Version 1.1: 2024-03-13
Changes: Data collection, Database references, Refinement description

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.