4AR6 | pdb_00004ar6

X-ray crystallographic structure of the reduced form perdeuterated Pyrococcus furiosus rubredoxin at 295 K (in quartz capillary) to 0.92 Angstroms resolution.

PDB DOI: https://doi.org/10.2210/pdb4AR6/pdb

Classification: ELECTRON TRANSPORT
Organism(s): Pyrococcus furiosus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2012-04-20 Released: 2012-12-19
Deposition Author(s): Cuypers, M.G., Mason, S.A., Blakeley, M.P., Mitchell, E.P., Haertlein, M., Forsyth, V.T.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 0.92 Å
R-Value Free:
0.136 (Depositor), 0.143 (DCC)
R-Value Work:
0.129 (Depositor)
R-Value Observed:
0.129 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 4AR6

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

Literature

Near-Atomic Resolution Neutron Crystallography on Perdeuterated Pyrococcus Furiosus Rubredoxin: Implication of Hydronium Ions and Protonation Equilibria and Hydronium Ions in Redox Changes

Cuypers, M.G., Mason, S.A., Blakeley, M.P., Mitchell, E.P., Haertlein, M., Forsyth, V.T.

(2013) Angew Chem Int Ed Engl 52: 1022

PubMed: 23225503 Search on PubMed
DOI: https://doi.org/10.1002/anie.201207071
Primary Citation Related Structures:
4AR3, 4AR4, 4AR5, 4AR6

Organizational Affiliation

EPSAM/ISTM, Keele University, Staffordshire, ST5 5BG, UK.

Macromolecule Content

Total Structure Weight: 6.09 kDa
Atom Count: 611
Modeled Residue Count: 54
Deposited Residue Count: 54
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RUBREDOXIN	A	54	Pyrococcus furiosus	Mutation(s): 0
UniProt
Find proteins for P24297 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Explore P24297 Go to UniProtKB: P24297
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P24297
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FE Query on FE Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	FE (III) ION Fe VTLYFUHAOXGGBS-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 0.92 Å
R-Value Free: 0.136 (Depositor), 0.143 (DCC)
R-Value Work: 0.129 (Depositor)
R-Value Observed: 0.129 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 34.375	α = 90
b = 35.183	β = 90
c = 43.944	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
SCALA	data scaling
PHENIX	phasing

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2012-12-19

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2012-12-19
Type: Initial release
Version 1.1: 2013-01-30
Changes: Database references
Version 1.2: 2024-05-08
Changes: Data collection, Database references, Derived calculations, Other

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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.