6MAN

Crystal structure of a DnaN sliding clamp DNA polymerase III subunit beta from Rickettsia bellii RML369-C

• PDB DOI: https://doi.org/10.2210/pdb6MAN/pdb

• Classification: TRANSCRIPTION
• Organism(s): Rickettsia bellii RML369-C
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2018-08-28 Released: 2018-09-05 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease, Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.35 Å
• R-Value Free: 0.240 
• R-Value Work: 0.188 
• R-Value Observed: 0.190 

Literature

Crystal structure of a DnaN sliding clamp DNA polymerase III subunit beta from Rickettsia bellii RML369-C

Edwards, T.E., Conrady, D.G., Horanyi, P.S., Lorimer, D.D., Seattle Structural Genomics Center for Infectious Disease

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 85.97 kDa 
• Atom Count: 5,723 
• Modelled Residue Count: 754 
• Deposited Residue Count: 774 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta sliding clamp	A, B	387	Rickettsia bellii RML369-C	Mutation(s): 0  Gene Names: dnaN, RBE_0656
UniProt
Find proteins for Q1RIS7 (Rickettsia bellii (strain RML369-C)) Explore Q1RIS7  Go to UniProtKB:  Q1RIS7

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	C [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
SCN	D [auth B]	THIOCYANATE ION C N S ZMZDMBWJUHKJPS-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.35 Å
• R-Value Free: 0.240 
• R-Value Work: 0.188 
• R-Value Observed: 0.190 
• Space Group: P 1 2₁ 1
• Diffraction Data: https://doi.org/10.18430/m36man

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.88	α = 90
b = 81.74	β = 92.87
c = 89.18	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2018-09-05 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease, Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History  

• Version 1.0: 2018-09-05
  Type: Initial release
  
• Version 1.1: 2023-10-11
  Changes: Data collection, Database references, Refinement description