6ECY | pdb_00006ecy

OhrA (Organic Hydroperoxide Resistance protein) wild type from chromobacterium violaceum

PDB DOI: https://doi.org/10.2210/pdb6ECY/pdb

Classification: OXIDOREDUCTASE
Organism(s): Chromobacterium violaceum ATCC 12472
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2018-08-08 Released: 2020-02-12
Deposition Author(s): Domingos, R.M., Teixeira, R.D., Alegria, T.G.P., Netto, L.E.S.
Funding Organization(s): Brazilian National Council for Scientific and Technological Development (CNPq)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.40 Å
R-Value Free:
0.179 (Depositor), 0.186 (DCC)
R-Value Work:
0.151 (Depositor)
R-Value Observed:
0.153 (Depositor)

Starting Model: experimental
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This is version 1.3 of the entry. See complete history.

Literature

Substrate and product-assisted catalysis: molecular aspects behind structural switches along Organic Hydroperoxide Resistance Protein catalytic cycle

Domingos, R.M., Teixeira, R.D., Zeida, A., Agudelo, W.A., Alegria, T.G.P., da Silva Neto, J.F., Vieira, P.S., Murakami, M.T., Farah, C.S., Estrin, D.A., Netto, L.E.S.

(2020) ACS Catal

DOI: https://doi.org/10.1021/acscatal.0c01257

Macromolecule Content

Total Structure Weight: 33.17 kDa
Atom Count: 2,438
Modeled Residue Count: 298
Deposited Residue Count: 324
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Organic hydroperoxide resistance protein	A, B	162	Chromobacterium violaceum ATCC 12472	Mutation(s): 0 Gene Names: ohr2, CV_0209
UniProt
Find proteins for Q7P1K4 (Chromobacterium violaceum (strain ATCC 12472 / DSM 30191 / JCM 1249 / CCUG 213 / NBRC 12614 / NCIMB 9131 / NCTC 9757 / MK)) Explore Q7P1K4 Go to UniProtKB: Q7P1K4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q7P1K4
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.40 Å
R-Value Free: 0.179 (Depositor), 0.186 (DCC)
R-Value Work: 0.151 (Depositor)
R-Value Observed: 0.153 (Depositor)

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 138.094	α = 90
b = 138.094	β = 90
c = 45.116	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2020-02-12

Deposition Author(s):

Alegria, T.G.P.

Funding Organization	Location	Grant Number
Brazilian National Council for Scientific and Technological Development (CNPq)	Brazil	FAPESP: 2013/07937-8

Revision History (Full details and data files)

Version 1.0: 2020-02-12
Type: Initial release
Version 1.1: 2020-05-27
Changes: Database references
Version 1.2: 2023-10-11
Changes: Data collection, Database references, Refinement description
Version 1.3: 2024-10-16
Changes: 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.