9YIZ | pdb_00009yiz

Crystal structure of yeast coatomer alpha-WD40 domain H31A mutant

PDB DOI: https://doi.org/10.2210/pdb9YIZ/pdb

Classification: PROTEIN TRANSPORT
Organism(s): Schizosaccharomyces pombe
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2025-10-02 Released: 2026-10-07
Deposition Author(s): Shakya, A.K., Hasan, S.S.
Funding Organization(s): National Institutes of Health/Office of the Director

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.72 Å
R-Value Free:
0.205 (Depositor), 0.205 (DCC)
R-Value Work:
0.164 (Depositor), 0.164 (DCC)
R-Value Observed:
0.165 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of yeast coatomer alpha-WD40 domain H31A mutant

Shakya, A.K., Hasan, S.S.

To be published.

Macromolecule Content

Total Structure Weight: 113.08 kDa
Atom Count: 8,297
Modeled Residue Count: 918
Deposited Residue Count: 984
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative coatomer subunit alpha	A, B, C	328	Schizosaccharomyces pombe	Mutation(s): 6 Gene Names: SPBPJ4664.04
UniProt
Find proteins for Q96WV5 (Schizosaccharomyces pombe (strain 972 / ATCC 24843)) Explore Q96WV5 Go to UniProtKB: Q96WV5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q96WV5
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.72 Å
R-Value Free: 0.205 (Depositor), 0.205 (DCC)
R-Value Work: 0.164 (Depositor), 0.164 (DCC)
R-Value Observed: 0.165 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 36.656	α = 90
b = 172.117	β = 98.71
c = 70.998	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-10-07

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/Office of the Director	United States	R01GM150187

Revision History (Full details and data files)

Version 1.0: 2026-10-07
Type: Initial release