4XX2 | pdb_00004xx2

Ohr from Xylella fastidiosa in oxidized state

PDB DOI: https://doi.org/10.2210/pdb4XX2/pdb

Classification: OXIDOREDUCTASE
Organism(s): Xylella fastidiosa 9a5c
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2015-01-29 Released: 2016-02-03
Deposition Author(s): Alegria, T.G.P., Discola, K.F., Cussiol, J.R.R., Oliveira, M.A., Netto, L.E.S.
Funding Organization(s): Sao Paulo Research Foundation (FAPESP)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.15 Å
R-Value Free:
0.226 (Depositor), 0.220 (DCC)
R-Value Work:
0.176 (Depositor), 0.189 (DCC)
R-Value Observed:
0.179 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 2.3 of the entry. See complete history.

Literature

Ohr from Xylella fastidiosa in oxidized state

Alegria, T.G.P., Discola, K.F., Cussiol, J.R.R., Oliveira, M.A., Netto, L.E.S.

To be published.

Macromolecule Content

Total Structure Weight: 51.25 kDa
Atom Count: 3,391
Modeled Residue Count: 423
Deposited Residue Count: 489
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, C	163	Xylella fastidiosa 9a5c	Mutation(s): 0 Gene Names: XF_1827, ohr EC: 1
UniProt
Find proteins for Q9PCF4 (Xylella fastidiosa (strain 9a5c)) Explore Q9PCF4 Go to UniProtKB: Q9PCF4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9PCF4
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.15 Å
R-Value Free: 0.226 (Depositor), 0.220 (DCC)
R-Value Work: 0.176 (Depositor), 0.189 (DCC)
R-Value Observed: 0.179 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 87.813	α = 90
b = 83.693	β = 93.67
c = 60.766	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2016-02-03

Deposition Author(s):

Alegria, T.G.P.

Cussiol, J.R.R.

Funding Organization	Location	Grant Number
Sao Paulo Research Foundation (FAPESP)	Brazil	2008/07971-3

Revision History (Full details and data files)

Version 1.0: 2016-02-03
Type: Initial release
Version 1.1: 2017-09-06
Changes: Author supporting evidence, Data collection, Derived calculations
Version 2.0: 2019-04-17
Changes: Atomic model, Author supporting evidence, Data collection
Version 2.1: 2020-01-01
Changes: Author supporting evidence
Version 2.2: 2023-09-27
Changes: Data collection, Database references, Refinement description
Version 2.3: 2024-11-13
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.