1WD6

crystal structure of JW1657 from Escherichia coli

PDB DOI: https://doi.org/10.2210/pdb1WD6/pdb

Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
Organism(s): Escherichia coli
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2004-05-12 Released: 2004-11-12
Deposition Author(s): Kato-Murayama, M., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.90 Å
R-Value Free: 0.242
R-Value Work: 0.208

wwPDB Validation 3D Report Full Report

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

Literature

crystal structure of JW1657 from Escherichia coli

Kato-Murayama, M., Shirouzu, M., Yokoyama, S.

To be published.

Macromolecule Content

Total Structure Weight: 27.83 kDa
Atom Count: 1,547
Modelled Residue Count: 193
Deposited Residue Count: 246
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein ydhR	A, B	123	Escherichia coli	Mutation(s): 2
UniProt
Find proteins for P0ACX3 (Escherichia coli (strain K12)) Explore P0ACX3 Go to UniProtKB: P0ACX3
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P0ACX3
Sequence Annotations Expand
Reference Sequence

Small Molecules

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.90 Å
R-Value Free: 0.242
R-Value Work: 0.208
Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 85.803	α = 90
b = 85.803	β = 90
c = 95.923	γ = 120

Software Package:

Software Name	Purpose
CNS	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
SOLVE	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2004-11-12

Deposition Author(s):

Kato-Murayama, M.

RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History (Full details and data files)

Version 1.0: 2004-11-12
Type: Initial release
Version 1.1: 2008-04-30
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.