9B47 | pdb_00009b47

Y328F variant of P. indica phosphate transporter

PDB DOI: https://doi.org/10.2210/pdb9B47/pdb

Classification: TRANSPORT PROTEIN
Organism(s): Serendipita indica
Expression System: Saccharomyces cerevisiae
Mutation(s): Yes
Membrane Protein: Yes PDBTM MemProtMD

Deposited: 2024-03-20 Released: 2025-03-26
Deposition Author(s): Gupta, M., Finer-Moore, J., Stroud, R.M.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.70 Å
R-Value Free:
0.257 (Depositor), 0.250 (DCC)
R-Value Work:
0.225 (Depositor), 0.224 (DCC)
R-Value Observed:
0.233 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 9B47

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

Literature

Roles of PiPT residues in phosphate binding and transport tested by mutagenesis

Gupta, M., Finer-Moore, J., Nelson, A., Kumar, H., Johri, A., Stroud, R.M.

To be published.

Macromolecule Content

Total Structure Weight: 117.14 kDa
Atom Count: 6,661
Modeled Residue Count: 862
Deposited Residue Count: 1,060
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phosphate transporter	A, B	530	Serendipita indica	Mutation(s): 1 Membrane Entity: Yes
UniProt
Find proteins for G4TS85 (Serendipita indica (strain DSM 11827)) Explore G4TS85 Go to UniProtKB: G4TS85
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	G4TS85
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PO4 Query on PO4 Download:Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	PHOSPHATE ION O₄ P NBIIXXVUZAFLBC-UHFFFAOYSA-K		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.70 Å
R-Value Free: 0.257 (Depositor), 0.250 (DCC)
R-Value Work: 0.225 (Depositor), 0.224 (DCC)
R-Value Observed: 0.233 (Depositor)

Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 174.23	α = 90
b = 174.23	β = 90
c = 171.53	γ = 120

Software Package:

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

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2025-03-26

Deposition Author(s):

Finer-Moore, J.

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R01 GM24485

Revision History (Full details and data files)

Version 1.0: 2025-03-26
Type: Initial release

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.