6QMV | pdb_00006qmv

E87D sulfur oxygenase reductase

PDB DOI: https://doi.org/10.2210/pdb6QMV/pdb

Classification: OXIDOREDUCTASE
Organism(s): Acidianus ambivalens
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2019-02-08 Released: 2020-03-04
Deposition Author(s): Frazao, C., Klezin, A., Veith, A.
Funding Organization(s): German Research Foundation, Fundacao para a Ciencia e a Tecnologia

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.87 Å
R-Value Free:
0.193 (Depositor), 0.194 (DCC)
R-Value Work:
0.159 (Depositor), 0.159 (DCC)
R-Value Observed:
0.160 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Multiple sulfane modifications in active-site cysteine thiols of two sulfur oxygenase reductases and analysis of substrate/product channels

Frazao, C., Klezin, A.

To be published.

Macromolecule Content

Total Structure Weight: 218.78 kDa
Atom Count: 16,476
Modeled Residue Count: 1,842
Deposited Residue Count: 1,908
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sulfur oxygenase/reductase	A, B, C, D, E A, B, C, D, E, F	318	Acidianus ambivalens	Mutation(s): 1 Gene Names: sor EC: 1.13.11.55
UniProt
Find proteins for P29082 (Acidianus ambivalens) Explore P29082 Go to UniProtKB: P29082
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P29082
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 2 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CSS Query on CSS	A, B, C, D, E A, B, C, D, E, F	L-PEPTIDE LINKING	C₃ H₇ N O₂ S₂		CYS
TSY Query on TSY	A, B, C, D, E A, B, C, D, E, F	L-PEPTIDE LINKING	C₃ H₇ N O₂ S₃		CYS

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.87 Å
R-Value Free: 0.193 (Depositor), 0.194 (DCC)
R-Value Work: 0.159 (Depositor), 0.159 (DCC)
R-Value Observed: 0.160 (Depositor)

Space Group: I 4

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 161.92	α = 90
b = 161.92	β = 90
c = 154.25	γ = 90

Software Package:

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

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2020-03-04

Deposition Author(s):

Funding Organization	Location	Grant Number
German Research Foundation	Germany	Kl885-6/1
Fundacao para a Ciencia e a Tecnologia	Portugal	LIOA-01-0145-FEDER-007660

Revision History (Full details and data files)

Version 1.0: 2020-03-04
Type: Initial release
Version 1.1: 2024-01-24
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 1.2: 2024-11-20
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.