6CBS | pdb_00006cbs

DnaG Primase C-terminal domain complex with SSB C-terminal peptide

• PDB DOI: https://doi.org/10.2210/pdb6CBS/pdb

• Classification: REPLICATION
• Organism(s): Escherichia coli K-12
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2018-02-05 Released: 2019-02-06 
• Deposition Author(s): Oakley, A.J., Lo, A.T.Y.
• Funding Organization(s): Australian Research Council (ARC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 
  0.224 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.192 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.194 (Depositor) 

Starting Model: experimental

Literature

DnaG Primase C-terminal domain complex with SSB C-terminal peptide

Oakley, A.J., Lo, A.T.Y.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 38.01 kDa 
• Atom Count: 2,660 
• Modeled Residue Count: 282 
• Deposited Residue Count: 332 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA primase, single-stranded DNA-binding protein chimera	A, B	166	Escherichia coli K-12	Mutation(s): 0  Gene Names: dnaG, dnaP, parB, b3066, JW3038, ssb_1, BUE81_14300, ERS085374_00666 EC: 2.7.7.101
UniProt
Find proteins for P0ABS5 (Escherichia coli (strain K12)) Explore P0ABS5  Go to UniProtKB:  P0ABS5

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	C [auth A], D [auth A], E [auth A], H [auth B], I [auth B], J [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
ACY	F [auth A], G [auth A], K [auth B], L [auth B]	ACETIC ACID C2 H4 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free:  0.224 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.192 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.194 (Depositor) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.895	α = 90
b = 115.202	β = 90
c = 45.817	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
iMOSFLM	data reduction
SCALA	data scaling
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-02-06 
Deposition Author(s): Oakley, A.J., Lo, A.T.Y.

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Funding Organization	Location	Grant Number
Australian Research Council (ARC)	Australia	DP0877658

Revision History  

• Version 1.0: 2019-02-06
  Type: Initial release
  
• Version 1.1: 2020-01-01
  Changes: Author supporting evidence
• Version 1.2: 2023-10-04
  Changes: Data collection, Database references, Derived calculations, Refinement description