4OMU | pdb_00004omu

Crystal structure of shikimate dehydrogenase (AroE) from Pseudomonas putida

PDB DOI: https://doi.org/10.2210/pdb4OMU/pdb

Classification: OXIDOREDUCTASE
Organism(s): Pseudomonas putida KT2440
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2014-01-27 Released: 2014-06-04
Deposition Author(s): Peek, J., Christendat, D.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.65 Å
R-Value Free:
0.217 (Depositor), 0.216 (DCC)
R-Value Work:
0.181 (Depositor), 0.185 (DCC)

Starting Model: experimental
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This is version 1.1 of the entry. See complete history.

Literature

Crystal structure of shikimate dehydrogenase (AroE) from Pseudomonas putida

Peek, J., Christendat, D.

To be published.

Macromolecule Content

Total Structure Weight: 60.93 kDa
Atom Count: 4,700
Modeled Residue Count: 556
Deposited Residue Count: 566
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Shikimate dehydrogenase	A, B	283	Pseudomonas putida KT2440	Mutation(s): 0 Gene Names: aroE-1, aroE, aroE1, PP_0074 EC: 1.1.1.25
UniProt
Find proteins for Q88RQ5 (Pseudomonas putida (strain ATCC 47054 / DSM 6125 / CFBP 8728 / NCIMB 11950 / KT2440)) Explore Q88RQ5 Go to UniProtKB: Q88RQ5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q88RQ5
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 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 B] MOL2 format, chain C [auth B] mmCIF format, chain C [auth B]	C [auth B]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain C [auth B] Interactions & Density Focus chain C [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.65 Å
R-Value Free: 0.217 (Depositor), 0.216 (DCC)
R-Value Work: 0.181 (Depositor), 0.185 (DCC)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.555	α = 90
b = 84.393	β = 90
c = 94.404	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHASER	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2014-06-04

Deposition Author(s):

Christendat, D.

Revision History (Full details and data files)

Version 1.0: 2014-06-04
Type: Initial release
Version 1.1: 2023-09-20
Changes: Data collection, Database references, Derived calculations, Refinement description

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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.