8TFS | pdb_00008tfs

Crystal structure of the Rhodanese-like domain of Vretifemale_1082 from Volvox reticuliferus

PDB DOI: https://doi.org/10.2210/pdb8TFS/pdb

Classification: TRANSFERASE
Organism(s): Volvox reticuliferus
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2023-07-11 Released: 2023-08-16
Deposition Author(s): Arbing, M.A., Jonikas, M., Yeates, T.O.
Funding Organization(s): Department of Energy (DOE, United States)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.95 Å
R-Value Free:
0.210 (Depositor), 0.210 (DCC)
R-Value Work:
0.185 (Depositor), 0.180 (DCC)
R-Value Observed:
0.188 (Depositor)

Starting Model: in silico
View more details

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Crystal structure of the Rhodanese-like domain of Vretifemale_1082 from Volvox reticuliferus

Arbing, M.A., Jonikas, M., Yeates, T.O.

To be published.

Macromolecule Content

Total Structure Weight: 40.05 kDa
Atom Count: 2,256
Modeled Residue Count: 282
Deposited Residue Count: 372
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Rhodanese domain-containing protein	A, B	186	Volvox reticuliferus	Mutation(s): 0 Gene Names: Vretifemale_1082
UniProt
Find proteins for A0A8J4BWA0 (Volvox reticuliferus) Explore A0A8J4BWA0 Go to UniProtKB: A0A8J4BWA0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A8J4BWA0
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.95 Å
R-Value Free: 0.210 (Depositor), 0.210 (DCC)
R-Value Work: 0.185 (Depositor), 0.180 (DCC)
R-Value Observed: 0.188 (Depositor)

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.39	α = 90
b = 66.39	β = 90
c = 141.39	γ = 120

Software Package:

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

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-08-16

Deposition Author(s):

Funding Organization	Location	Grant Number
Department of Energy (DOE, United States)	United States	DE-FC02-02ER63421

Revision History (Full details and data files)

Version 1.0: 2023-08-16
Type: Initial release

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.