9H8V | pdb_00009h8v

The Cryo-EM structure of bacterial beta-1,3-glucan phosphorylase from family GH161

PDB DOI: https://doi.org/10.2210/pdb9H8V/pdb
Entry: 9H8V supersedes: 9GY9
EM Map EMD-51944: EMDB EMDataResource

Classification: SUGAR BINDING PROTEIN
Organism(s): gut metagenome
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2024-10-29 Released: 2025-11-12
Deposition Author(s): Cioci, G., Cooper, N., Ladeveze, S., Shayan, R.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.41 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

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

This is version 1.1 of the entry. See complete history.

Literature

Structural and Functional Dissection of GH161 beta-Glucan Phosphorylases: Molecular Specificities and Dynamics of Catalysis of Dimeric GH-Q Enzymes

Cooper, N.J., Ladeveze, S., Li, A., Shayan, R., Faure, R., Ropartz, D., Terrapon, N., Lombard, V., Henrissat, B., Remaud-Simeon, M., Potocki-Veronese, G., Moulis, C., Cioci, G.

(2025) ACS Catal 15: 19312-19327

DOI: https://doi.org/10.1021/acscatal.5c05191

Macromolecule Content

Total Structure Weight: 237.97 kDa
Atom Count: 16,648
Modeled Residue Count: 2,078
Deposited Residue Count: 2,078
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cellobiose phosphorylase	A, B	1,039	gut metagenome	Mutation(s): 0 Gene Names: RHOM_07480
UniProt
Find proteins for G2SWT3 (Roseburia hominis (strain DSM 16839 / JCM 17582 / NCIMB 14029 / A2-183)) Explore G2SWT3 Go to UniProtKB: G2SWT3
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	G2SWT3
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.41 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC
MODEL REFINEMENT	Coot
MODEL REFINEMENT	PHENIX

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2025-11-12

Deposition Author(s):

This entry supersedes: 9GY9

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2025-11-12
Type: Initial release
Version 1.1: 2025-12-10
Changes: Advisory, Data collection, Database references, Source and taxonomy

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.