9Z2E | pdb_00009z2e

Crystal structure of beta-glucosidase Bgl1 from Rhizobium sp. C1

PDB DOI: https://doi.org/10.2210/pdb9Z2E/pdb

Classification: HYDROLASE
Organism(s): Rhizobium sp. C1
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2025-11-04 Released: 2026-11-11
Deposition Author(s): Pierson, E., Jones, G., Vickers, C.
Funding Organization(s): Marsden Fund

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.47 Å
R-Value Free:
0.168 (Depositor), 0.169 (DCC)
R-Value Work:
0.147 (Depositor), 0.147 (DCC)
R-Value Observed:
0.147 (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

Cellulases from Rhizobium sp. C1 and their potential for biological control against Phytophtora sp.

Mainwaring, J.C., Pierson, E., Jones, G., Vickers, C., Gerth, M.L.

To be published.

Macromolecule Content

Total Structure Weight: 107.43 kDa
Atom Count: 8,225
Modeled Residue Count: 903
Deposited Residue Count: 954
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
beta-glucosidase Bgl1	A, B	477	Rhizobium sp. C1	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
TRS (Subject of Investigation/LOI) Query on TRS Download:Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain E [auth B] MOL2 format, chain C [auth A] MOL2 format, chain E [auth B] mmCIF format, chain C [auth A] mmCIF format, chain E [auth B]	C [auth A], E [auth B]	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C₄ H₁₂ N O₃ LENZDBCJOHFCAS-UHFFFAOYSA-O		Interactions Focus chain C [auth A] Focus chain E [auth B] Interactions & Density Focus chain C [auth A] Focus chain E [auth B]
GOL Query on GOL Download:Ideal Coordinates CCD File SDF format, chain H [auth B] MOL2 format, chain H [auth B] mmCIF format, chain H [auth B]	H [auth B]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain H [auth B] Interactions & Density Focus chain H [auth B]
EDO Query on EDO 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]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain D [auth A] Interactions & Density Focus chain D [auth A]
ACT Query on ACT Download:Ideal Coordinates CCD File SDF format, chain F [auth B] SDF format, chain G [auth B] SDF format, chain I [auth B] MOL2 format, chain F [auth B] MOL2 format, chain G [auth B] MOL2 format, chain I [auth B] mmCIF format, chain F [auth B] mmCIF format, chain G [auth B] mmCIF format, chain I [auth B]	F [auth B], G [auth B], I [auth B]	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		Interactions Focus chain F [auth B] Focus chain G [auth B] Focus chain I [auth B] Interactions & Density Focus chain F [auth B] Focus chain G [auth B] Focus chain I [auth B]