2ZF3 | pdb_00002zf3

Crystal Structure of VioE

PDB DOI: https://doi.org/10.2210/pdb2ZF3/pdb

Classification: ANTIBIOTIC
Organism(s): Chromobacterium violaceum
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2007-12-20 Released: 2008-01-01
Deposition Author(s): Hirano, S., Shiro, Y., Nagano, S.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.245 (Depositor), 0.208 (DCC)
R-Value Work:
0.199 (Depositor), 0.210 (DCC)
R-Value Observed:
0.202 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 2ZF3

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

Literature

Crystal structure of VioE, a key player in the construction of the molecular skeleton of violacein

Hirano, S., Asamizu, S., Onaka, H., Shiro, Y., Nagano, S.

To be published.

Macromolecule Content

Total Structure Weight: 132.53 kDa
Atom Count: 9,305
Modeled Residue Count: 1,089
Deposited Residue Count: 1,164
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical protein VioE	A, B, C, D, E A, B, C, D, E, F	194	Chromobacterium violaceum	Mutation(s): 0
UniProt
Find proteins for Q7NSZ5 (Chromobacterium violaceum (strain ATCC 12472 / DSM 30191 / JCM 1249 / CCUG 213 / NBRC 12614 / NCIMB 9131 / NCTC 9757 / MK)) Explore Q7NSZ5 Go to UniProtKB: Q7NSZ5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q7NSZ5
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.245 (Depositor), 0.208 (DCC)
R-Value Work: 0.199 (Depositor), 0.210 (DCC)
R-Value Observed: 0.202 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.099	α = 90
b = 88.435	β = 90
c = 153.859	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data collection
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2008-01-01

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2008-01-01
Type: Initial release
Version 1.1: 2011-07-13
Changes: Advisory, Version format compliance
Version 1.2: 2024-03-13
Changes: Data collection, Database references

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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.