8FVZ | pdb_00008fvz

PiPT Y150A

PDB DOI: https://doi.org/10.2210/pdb8FVZ/pdb

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

Deposited: 2023-01-20 Released: 2024-01-03
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: 3.10 Å
R-Value Free:
0.216 (Depositor), 0.212 (DCC)
R-Value Work:
0.194 (Depositor), 0.193 (DCC)
R-Value Observed:
0.201 (Depositor)

Starting Model: experimental
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Ligand Structure Quality Assessment

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., Verma, N., Jhori, A., Stroud, R.M.

To be published.

Macromolecule Content

Total Structure Weight: 117.27 kDa
Atom Count: 6,632
Modeled Residue Count: 861
Deposited Residue Count: 1,060
Unique protein chains: 1

Macromolecules

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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 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FLC (Subject of Investigation/LOI) Query on FLC Download:Ideal Coordinates CCD File SDF format, chain D [auth A] MOL2 format, chain D [auth A] mmCIF format, chain D [auth A]	D [auth A]	CITRATE ANION C₆ H₅ O₇ KRKNYBCHXYNGOX-UHFFFAOYSA-K		Interactions Focus chain D [auth A] Interactions & Density Focus chain D [auth A]
PO4 (Subject of Investigation/LOI) Query on PO4 Download:Ideal Coordinates CCD File SDF format, chain E [auth B] SDF format, chain C [auth A] MOL2 format, chain E [auth B] MOL2 format, chain C [auth A] mmCIF format, chain E [auth B] mmCIF format, chain C [auth A]	C [auth A], E [auth B]	PHOSPHATE ION O₄ P NBIIXXVUZAFLBC-UHFFFAOYSA-K		Interactions Focus chain C [auth A] Focus chain E [auth B] Interactions & Density Focus chain C [auth A] Focus chain E [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.10 Å
R-Value Free: 0.216 (Depositor), 0.212 (DCC)
R-Value Work: 0.194 (Depositor), 0.193 (DCC)
R-Value Observed: 0.201 (Depositor)

Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 172.984	α = 90
b = 172.984	β = 90
c = 171.862	γ = 120

Software Package:

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

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

& Funding Information

Deposition Data

Released Date: 2024-01-03

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: 2024-01-03
Type: Initial release

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