8U2F | pdb_00008u2f

Vibrio parahaemolyticus ToxS periplasmic domain

PDB DOI: https://doi.org/10.2210/pdb8U2F/pdb

Classification: MEMBRANE PROTEIN
Organism(s): Vibrio parahaemolyticus
Expression System: Escherichia coli BL21
Mutation(s): No

Deposited: 2023-09-06 Released: 2024-09-11
Deposition Author(s): Kim, M., Kull, F.J., Midgett, C.R.
Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.263 (Depositor), 0.263 (DCC)
R-Value Work:
0.208 (Depositor), 0.208 (DCC)
R-Value Observed:
0.213 (Depositor)

Starting Model: in silico
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This is version 1.0 of the entry. See complete history.

Literature

Vibrio parahaemolyticus ToxS periplasmic domain

Kim, M., Kull, F.J., Midgett, C.R.

To be published.

Macromolecule Content

Total Structure Weight: 33.69 kDa
Atom Count: 2,288
Modeled Residue Count: 274
Deposited Residue Count: 298
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transmembrane regulatory protein ToxS	A, B	149	Vibrio parahaemolyticus	Mutation(s): 0 Gene Names: toxS
UniProt
Find proteins for Q05939 (Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)) Explore Q05939 Go to UniProtKB: Q05939
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q05939
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.263 (Depositor), 0.263 (DCC)
R-Value Work: 0.208 (Depositor), 0.208 (DCC)
R-Value Observed: 0.213 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.85	α = 90
b = 58.33	β = 90
c = 89.68	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Coot	model building
XDS	data reduction
XSCALE	data scaling
PHENIX	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2024-09-11

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	--

Revision History (Full details and data files)

Version 1.0: 2024-09-11
Type: Initial release

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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.