Macromolecule Content

Total Structure Weight: 40.77 kDa
Atom Count: 2688
Residue Count: 324
Unique protein chains: 1

2GU1

Crystal structure of a zinc containing peptidase from vibrio cholerae

DOI: 10.2210/pdb2GU1/pdb

Classification: HYDROLASE
Organism(s): Vibrio cholerae
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2006-04-28 Released: 2006-07-04
Deposition Author(s): Sugadev, R., Kumaran, D., Swaminathan, S., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free: 0.264
R-Value Work: 0.230
R-Value Observed: 0.230

wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of a putative lysostaphin peptidase from Vibrio cholerae.

Ragumani, S., Kumaran, D., Burley, S.K., Swaminathan, S.

(2008) Proteins 72: 1096-1103

PubMed: 18498110 Search on PubMedSearch on PubMed Central
DOI: 10.1002/prot.22095
Primary Citation of Related Structures:
2GU1

Macromolecules

Find similar proteins by:

(by identity cutoff) | Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Zinc peptidase	A	361	Vibrio cholerae	Mutation(s): 0 EC: 3.4
Find proteins for Q9KUL5 (Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)) Explore Q9KUL5 Go to UniProtKB: Q9KUL5
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ZN Query on ZN Download Ideal Coordinates CCD File SDF format, chain B [A] MOL2 format, chain B [A]	A	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Ligand Interaction
NA Query on NA Download Ideal Coordinates CCD File SDF format, chain C [A] MOL2 format, chain C [A]	A	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free: 0.264
R-Value Work: 0.230
R-Value Observed: 0.230
Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.382	α = 90
b = 85.396	β = 112.96
c = 53.404	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling
SHELXD	phasing
SHARP	phasing
ARP/wARP	model building

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Deposited Date: 2006-04-28
Released Date: 2006-07-04

Deposition Author(s):

Swaminathan, S.

New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History

Version 1.0: 2006-07-04
Type: Initial release
Version 1.1: 2008-05-01
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance

RCSB PDB is 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.