4PWO

Crystal structure of DsbA from the Gram positive bacterium Corynebacterium diphtheriae

• PDB DOI: https://doi.org/10.2210/pdb4PWO/pdb

• Classification: STRUCTURAL GENOMICS
• Organism(s): Corynebacterium diphtheriae
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2014-03-21 Released: 2015-03-25 
• Deposition Author(s): Um, S.H., Kim, J.S., Jiao, L., Yoon, B.Y., Jo, I., Ha, N.C.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.52 Å
• R-Value Free: 0.193 
• R-Value Work: 0.167 
• R-Value Observed: 0.168 

Starting Model: experimental

Literature

Crystal structure and biochemical characterization of DsbA from the Gram positive bacterium Corynebacterium diphtheriae

Um, S.H., Kim, J.S., Jiao, L., Yoon, B.Y., Jo, I., Ha, N.C.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 26.95 kDa 
• Atom Count: 2,175 
• Modelled Residue Count: 250 
• Deposited Residue Count: 250 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DsbA	A	250	Corynebacterium diphtheriae	Mutation(s): 0
UniProt
Find proteins for Q6NJK4 (Corynebacterium diphtheriae (strain ATCC 700971 / NCTC 13129 / Biotype gravis)) Explore Q6NJK4  Go to UniProtKB:  Q6NJK4

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	B [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.52 Å
• R-Value Free: 0.193 
• R-Value Work: 0.167 
• R-Value Observed: 0.168 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.638	α = 90
b = 68.318	β = 90
c = 69.193	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
Coot	model building
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-03-25 
Deposition Author(s): Um, S.H., Kim, J.S., Jiao, L., Yoon, B.Y., Jo, I., Ha, N.C.

Revision History  

• Version 1.0: 2015-03-25
  Type: Initial release
  
• Version 1.1: 2023-11-08
  Changes: Data collection, Database references, Derived calculations, Refinement description