4GO3

Crystal structure of PnpE from Pseudomonas sp. WBC-3

PDB DOI: https://doi.org/10.2210/pdb4GO3/pdb

Classification: OXIDOREDUCTASE
Organism(s): Pseudomonas sp. WBC-3
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2012-08-18 Released: 2014-02-26
Deposition Author(s): Su, J., Zhang, C., Liu, S., Zhu, D., Gu, L.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.70 Å
R-Value Free:
0.237 (Depositor), 0.230 (DCC)
R-Value Work:
0.223 (Depositor), 0.220 (DCC)
R-Value Observed:
0.224 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Crystal structure of PnpE from Pseudomonas sp. WBC-3

Su, J., Zhang, C., Liu, S., Zhu, D., Gu, L.

To be published.

Macromolecule Content

Total Structure Weight: 427.18 kDa
Atom Count: 29,686
Modelled Residue Count: 3,894
Deposited Residue Count: 3,960
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative gamma-hydroxymuconic semialdehyde dehydrogenase	A, B, C, D, E A, B, C, D, E, F, G, H	495	Pseudomonas sp. WBC-3	Mutation(s): 2 Gene Names: pnpE EC: 1.2.1.3
UniProt
Find proteins for C1I208 (Pseudomonas sp. (strain WBC-3)) Explore C1I208 Go to UniProtKB: C1I208
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	C1I208
Sequence Annotations Expand
Reference Sequence LOADING

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.70 Å
R-Value Free: 0.237 (Depositor), 0.230 (DCC)
R-Value Work: 0.223 (Depositor), 0.220 (DCC)
R-Value Observed: 0.224 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 83.531	α = 90
b = 144.252	β = 93.59
c = 138.288	γ = 90

Software Package:

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

Structure Validation

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Entry History

Deposition Data

Released Date: 2014-02-26

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2014-02-26
Type: Initial release
Version 1.1: 2023-11-08
Changes: Data collection, Database references, Refinement description

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.