32XB | pdb_000032xb

Cupin protein GloB from Pseudomonas aeruginosa

PDB DOI: https://doi.org/10.2210/pdb32XB/pdb

Classification: UNKNOWN FUNCTION
Organism(s): Pseudomonas aeruginosa
Expression System: Escherichia coli BL21
Mutation(s): No

Deposited: 2026-07-29 Released: 2026-11-04
Deposition Author(s): Contreras-Martel, C., Duarte, K., Macheboeuf, P.
Funding Organization(s): Agence Nationale de la Recherche (ANR), Agence Nationale de Recherches Sur le Sida et les Hepatites Virales (ANRS)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.48 Å
R-Value Free:
0.245 (Depositor), 0.249 (DCC)
R-Value Work:
0.219 (Depositor), 0.221 (DCC)

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

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

Literature

Structure of the cupin protein GloB from Pseudomonas aeruginosa at 1.48 angstrom resolution.

Contreras-Martel, C., Duarte, K., Macheboeuf, P.

(2026) Acta Crystallogr F Struct Biol Commun

PubMed: 42929186 Search on PubMed Search on PubMed Central
DOI: https://doi.org/10.1107/S2053230X26010514
Primary Citation Related Structures:
32XB

PubMed Abstract:
Pseudomonas aeruginosa is an opportunistic pathogen that causes severe infections in vulnerable patients. Highly virulent strains associated with hemorrhagic pneumonia harbor the glo nonribosomal peptide synthetase (NRPS) operon, the metabolic product of which remains unknown. The glo operon shares similarity with similar clusters from related bacteria, enabling the functional assignment of several glo genes, including gloB, which encodes a cupin-domain protein predicted to catalyze a metal-dependent step in the pathway. Here, we present the crystal structure of the GloB cupin domain from P. aeruginosa. The structure provides insight into part of the biosynthesis of an uncharacterized secondary metabolite and offers a foundation for understanding its potential contribution to bacterial pathogenicity.

Organizational Affiliation

Univ. Grenoble Alpes, CNRS, CEA, IBS, 38000 Grenoble, France.

Macromolecule Content

Total Structure Weight: 54.1 kDa
Atom Count: 4,306
Modeled Residue Count: 460
Deposited Residue Count: 460
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ChrR-like cupin domain-containing protein	A, B, C, D	115	Pseudomonas aeruginosa	Mutation(s): 0 Gene Names: CSB93_3354
UniProt
Find proteins for A0A2R3IQQ9 (Pseudomonas paraeruginosa) Explore A0A2R3IQQ9 Go to UniProtKB: A0A2R3IQQ9
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A2R3IQQ9
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
K (Subject of Investigation/LOI) Query on K Download:Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain H [auth B] SDF format, chain K [auth C] SDF format, chain M [auth D] MOL2 format, chain F [auth A] MOL2 format, chain H [auth B] MOL2 format, chain K [auth C] MOL2 format, chain M [auth D] mmCIF format, chain F [auth A] mmCIF format, chain H [auth B] mmCIF format, chain K [auth C] mmCIF format, chain M [auth D]	F [auth A], H [auth B], K [auth C], M [auth D]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain H [auth B] Focus chain K [auth C] Focus chain M [auth D] Interactions & Density Focus chain F [auth A] Focus chain H [auth B] Focus chain K [auth C] Focus chain M [auth D]
MG (Subject of Investigation/LOI) Query on MG Download:Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain G [auth B] SDF format, chain I [auth C] SDF format, chain J [auth C] SDF format, chain L [auth D] MOL2 format, chain E [auth A] MOL2 format, chain G [auth B] MOL2 format, chain I [auth C] MOL2 format, chain J [auth C] MOL2 format, chain L [auth D] mmCIF format, chain E [auth A] mmCIF format, chain G [auth B] mmCIF format, chain I [auth C] mmCIF format, chain J [auth C] mmCIF format, chain L [auth D]	E [auth A], G [auth B], I [auth C], J [auth C], L [auth D]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Focus chain G [auth B] Focus chain I [auth C] Focus chain J [auth C] Focus chain L [auth D] Interactions & Density Focus chain E [auth A] Focus chain G [auth B] Focus chain I [auth C] Focus chain J [auth C] Focus chain L [auth D]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.48 Å
R-Value Free: 0.245 (Depositor), 0.249 (DCC)
R-Value Work: 0.219 (Depositor), 0.221 (DCC)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 44.788	α = 94.176
b = 46.761	β = 91.61
c = 63.619	γ = 118.887

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing
ARP/wARP	model building

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-11-04

Deposition Author(s):

Contreras-Martel, C.

Duarte, K.

Macheboeuf, P.

Funding Organization	Location	Grant Number
Agence Nationale de la Recherche (ANR)	France	--
Agence Nationale de la Recherche (ANR)	France	ANR-21-ESRE-0011
Agence Nationale de la Recherche (ANR)	France	ANR-10-INBS-05-02
Agence Nationale de Recherches Sur le Sida et les Hepatites Virales (ANRS)	France	ANR-17-EURE-0003