9ZPJ | pdb_00009zpj

Crystal structure of MrtR bound to 3OH-C8 homoserine lactone

PDB DOI: https://doi.org/10.2210/pdb9ZPJ/pdb

Classification: TRANSCRIPTION
Organism(s): Mesorhizobium tianshanense
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2025-12-16 Released: 2026-09-23
Deposition Author(s): Stoutland, I.M., Bingman, C.A., Blackwell, H.E.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.18 Å
R-Value Free:
0.173 (Depositor), 0.175 (DCC)
R-Value Work:
0.146 (Depositor), 0.153 (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

MrtR of Mesorhizobium tianshanense reveals both activation and inhibition mechanisms of a LuxR-type quorum sensing receptor.

Stoutland, I.M., Blackwell, H.E.

(2026) Proc Natl Acad Sci U S A

DOI: https://doi.org/10.1073/pnas.2616692123

Macromolecule Content

Total Structure Weight: 28.37 kDa
Atom Count: 2,613
Modeled Residue Count: 241
Deposited Residue Count: 241
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
MrtR	A	241	Mesorhizobium tianshanense	Mutation(s): 0 Gene Names: mrtR
UniProt
Find proteins for Q45NF4 (Mesorhizobium tianshanense) Explore Q45NF4 Go to UniProtKB: Q45NF4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q45NF4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
A1C3P( Subject of Investigation/LOI) Query on A1C3P Download:Ideal Coordinates CCD File SDF format, chain E [auth A] MOL2 format, chain E [auth A] mmCIF format, chain E [auth A]	E [auth A]	(3R)-3-hydroxy-N-[(3S)-2-oxooxolan-3-yl]octanamide C₁₂ H₂₁ N O₄ XCZVBYOXRSFQBH-ZJUUUORDSA-N		Interactions Focus chain E [auth A] Interactions & Density Focus chain E [auth A]
MRD Query on MRD Download:Ideal Coordinates CCD File SDF format, chain K [auth A] MOL2 format, chain K [auth A] mmCIF format, chain K [auth A]	K [auth A]	(4R)-2-METHYLPENTANE-2,4-DIOL C₆ H₁₄ O₂ SVTBMSDMJJWYQN-RXMQYKEDSA-N		Interactions Focus chain K [auth A] Interactions & Density Focus chain K [auth A]
PEG Query on PEG Download:Ideal Coordinates CCD File SDF format, chain B [auth A] SDF format, chain C [auth A] SDF format, chain D [auth A] SDF format, chain F [auth A] MOL2 format, chain B [auth A] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A] MOL2 format, chain F [auth A] mmCIF format, chain B [auth A] mmCIF format, chain C [auth A] mmCIF format, chain D [auth A] mmCIF format, chain F [auth A]	B [auth A], C [auth A], D [auth A], F [auth A]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Focus chain C [auth A] Focus chain D [auth A] Focus chain F [auth A] Interactions & Density Focus chain B [auth A] Focus chain C [auth A] Focus chain D [auth A] Focus chain F [auth A]
DMS Query on DMS Download:Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain H [auth A] SDF format, chain I [auth A] SDF format, chain J [auth A] MOL2 format, chain G [auth A] MOL2 format, chain H [auth A] MOL2 format, chain I [auth A] MOL2 format, chain J [auth A] mmCIF format, chain G [auth A] mmCIF format, chain H [auth A] mmCIF format, chain I [auth A] mmCIF format, chain J [auth A]	G [auth A], H [auth A], I [auth A], J [auth A]	DIMETHYL SULFOXIDE C₂ H₆ O S IAZDPXIOMUYVGZ-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Focus chain H [auth A] Focus chain I [auth A] Focus chain J [auth A] Interactions & Density Focus chain G [auth A] Focus chain H [auth A] Focus chain I [auth A] Focus chain J [auth A]