2WGL | pdb_00002wgl

Crystal structure of Helicobactor pylori UreF

PDB DOI: https://doi.org/10.2210/pdb2WGL/pdb

Classification: METAL BINDING PROTEIN
Organism(s): Helicobacter pylori 26695
Mutation(s): No

Deposited: 2009-04-21 Released: 2009-05-26
Deposition Author(s): Fong, Y.H., Chen, Y.W., Wong, K.B.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.232 (Depositor), 0.231 (DCC)
R-Value Work:
0.190 (Depositor), 0.192 (DCC)
R-Value Observed:
0.192 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 2WGL

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

Literature

Crystal Structure of H. Pylori Uref

Fong, Y.H., Chen, Y.W., Wong, K.B.

To be published.

Macromolecule Content

Total Structure Weight: 87.36 kDa
Atom Count: 5,509
Modeled Residue Count: 627
Deposited Residue Count: 762
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
UREASE ACCESSORY PROTEIN UREF	A, B, C	254	Helicobacter pylori 26695	Mutation(s): 0
UniProt
Find proteins for Q09065 (Helicobacter pylori (strain ATCC 700392 / 26695)) Explore Q09065 Go to UniProtKB: Q09065
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q09065
Sequence Annotations Expand
Reference Sequence

Small Molecules

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.232 (Depositor), 0.231 (DCC)
R-Value Work: 0.190 (Depositor), 0.192 (DCC)
R-Value Observed: 0.192 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 135.163	α = 90
b = 89.041	β = 94.04
c = 65.994	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2009-05-26

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2009-05-26
Type: Initial release
Version 1.1: 2011-05-08
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2024-11-13
Changes: Data collection, Database references, Derived calculations, Other, Structure summary

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.