2P25 | pdb_00002p25

The crystal structure of the glyoxalase family protein from Enterococcus faecalis

PDB DOI: https://doi.org/10.2210/pdb2P25/pdb

Classification: OXIDOREDUCTASE
Organism(s): Enterococcus faecalis V583
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2007-03-06 Released: 2007-04-03
Deposition Author(s): Zhang, R., Wu, R., Moy, S., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free:
0.230 (Depositor)
R-Value Work:
0.201 (Depositor)
R-Value Observed:
0.202 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 2P25

This is version 1.3 of the entry. See complete history.

Literature

The crystal structure of the glyoxalase family protein from Enterococcus faecalis

Zhang, R., Wu, R., Moy, S., Joachimiak, A.

To be published.

Macromolecule Content

Total Structure Weight: 14.83 kDa
Atom Count: 1,187
Modeled Residue Count: 126
Deposited Residue Count: 126
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glyoxalase family protein	A	126	Enterococcus faecalis V583	Mutation(s): 2 Gene Names: EF_2214 EC: 4.4.1.5
UniProt
Find proteins for Q832L2 (Enterococcus faecalis (strain ATCC 700802 / V583)) Explore Q832L2 Go to UniProtKB: Q832L2
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q832L2
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.230 (Depositor)
R-Value Work: 0.201 (Depositor)
R-Value Observed: 0.202 (Depositor)

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.695	α = 90
b = 67.893	β = 90
c = 87.5	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
SBC-Collect	data collection
HKL-3000	data reduction
HKL-3000	data scaling
MLPHARE	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2007-04-03

Deposition Author(s):

Midwest Center for Structural Genomics (MCSG)

Revision History (Full details and data files)

Version 1.0: 2007-04-03
Type: Initial release
Version 1.1: 2008-05-01
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Advisory, Derived calculations, Source and taxonomy, Version format compliance
Version 1.3: 2024-10-30
Changes: Data collection, Database references, Derived calculations, Structure summary

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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.