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)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.50 Å
R-Value Free:
0.237 (Depositor), 0.197 (DCC)
R-Value Work:
0.206 (Depositor)
R-Value Observed:
0.207 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 3GN3

This is version 1.2 of the entry. See complete history.

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.

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

Find similar proteins by:

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
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q87W03
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]
GOL Query on GOL Download:Ideal Coordinates CCD File SDF format, chain E [auth B] SDF format, chain D [auth A] MOL2 format, chain E [auth B] MOL2 format, chain D [auth A] mmCIF format, chain E [auth B] mmCIF format, chain D [auth A]	D [auth A], E [auth B]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain D [auth A] Focus chain E [auth B] Interactions & Density Focus chain D [auth A] Focus chain E [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.50 Å
R-Value Free: 0.237 (Depositor), 0.197 (DCC)
R-Value Work: 0.206 (Depositor)
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

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2009-03-31

Deposition Author(s):

Midwest Center for Structural Genomics (MCSG)

Revision History (Full details and data files)

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

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.