8ODS | pdb_00008ods

Phosphate-Binding Protein (PstS) from Xanthomonas citri pv. citri A306 bound to phosphate

PDB DOI: https://doi.org/10.2210/pdb8ODS/pdb

Classification: TRANSPORT PROTEIN
Organism(s): Xanthomonas citri pv. citri str. 306
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2023-03-09 Released: 2023-10-11
Deposition Author(s): Santos, L.S., Balan, A., Guskov, A.
Funding Organization(s): Sao Paulo Research Foundation (FAPESP)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.91 Å
R-Value Free:
0.250 (Depositor), 0.240 (DCC)
R-Value Work:
0.205 (Depositor), 0.200 (DCC)
R-Value Observed:
0.207 (Depositor)

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Phosphate-Binding Protein (PstS) from Xanthomonas citri pv. citri A306

Santos, L.S., Balan, A., Guskov, A.

To be published.

Macromolecule Content

Total Structure Weight: 36.24 kDa
Atom Count: 2,649
Modeled Residue Count: 313
Deposited Residue Count: 344
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phosphate-binding protein PstS	A	344	Xanthomonas citri pv. citri str. 306	Mutation(s): 0 Gene Names: pstS
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PO4 (Subject of Investigation/LOI) Query on PO4 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]	PHOSPHATE ION O₄ P NBIIXXVUZAFLBC-UHFFFAOYSA-K		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.91 Å
R-Value Free: 0.250 (Depositor), 0.240 (DCC)
R-Value Work: 0.205 (Depositor), 0.200 (DCC)
R-Value Observed: 0.207 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.37	α = 90
b = 73.137	β = 90
c = 99.165	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
XDS	data reduction
XSCALE	data scaling
BALBES	phasing

Structure Validation

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Ligand Structure Quality Assessment

Entry History & Funding Information

Deposition Data

Released Date: 2023-10-11

Deposition Author(s):

Funding Organization	Location	Grant Number
Sao Paulo Research Foundation (FAPESP)	Brazil	2020/10171-0

Revision History (Full details and data files)

Version 1.0: 2023-10-11
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.