3GN3 | pdb_00003gn3

Crystal structure of a putative protein-disulfide isomerase from Pseudomonas syringae to 2.5A resolution.

• PDB DOI: https://doi.org/10.2210/pdb3GN3/pdb

• Classification: structural genomics, unknown function
• Organism(s): Pseudomonas syringae pv. tomato
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-03-16 Released: 2009-03-31 
• Deposition Author(s): Stein, A.J., Chhor, G., Freeman, L., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 
  0.237 (Depositor), 0.230 (DCC) 
• R-Value Work: 
  0.206 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.207 (Depositor) 

Literature

Crystal structure of a putative protein-disulfide isomerase from Pseudomonas syringae to 2.5A resolution.

Stein, A.J., Chhor, G., Freeman, L., Joachimiak, A.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

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

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 40.18 kDa 
• Atom Count: 2,872 
• Modeled Residue Count: 358 
• Deposited Residue Count: 364 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
putative protein-disulfide isomerase	A, B	182	Pseudomonas syringae pv. tomato	Mutation(s): 0  Gene Names: PSPTO4780, PSPTO_4780
UniProt
Find proteins for Q87W03 (Pseudomonas syringae pv. tomato (strain ATCC BAA-871 / DC3000)) Explore Q87W03  Go to UniProtKB:  Q87W03

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	D [auth A], E [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free:  0.237 (Depositor), 0.230 (DCC) 
• R-Value Work:  0.206 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.207 (Depositor) 

Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 151.968	α = 90
b = 151.968	β = 90
c = 115.894	γ = 120

Software Package:

Software Name	Purpose
SBC-Collect	data collection
HKL-3000	phasing
SHELX	model building
MLPHARE	phasing
DM	model building
ARP/wARP	model building
Coot	model building
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling
SHELX	phasing
DM	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-03-31 
Deposition Author(s): Stein, A.J., Chhor, G., Freeman, L., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2009-03-31
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.2: 2024-02-21
  Changes: Data collection, Database references, Derived calculations