9Y2H | pdb_00009y2h

Crystal structure of MrtR bound to 7Z-3OH-C14 homoserine lactone

PDB DOI: https://doi.org/10.2210/pdb9Y2H/pdb

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

Deposited: 2025-09-01 Released: 2026-09-23
Deposition Author(s): Stoutland, I.M., Blackwell, H.E., Buller, A.R., Bingman, C.A.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.06 Å
R-Value Free:
0.294 (Depositor), 0.297 (DCC)
R-Value Work:
0.256 (Depositor), 0.256 (DCC)
R-Value Observed:
0.258 (Depositor)

Starting Model: in silico
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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

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: 82.8 kDa
Atom Count: 5,591
Modeled Residue Count: 707
Deposited Residue Count: 723
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
MrtR	A [auth B], B [auth A], C	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 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
A1CRU( Subject of Investigation/LOI) Query on A1CRU Download:Ideal Coordinates CCD File SDF format, chain D [auth B] SDF format, chain E [auth A] SDF format, chain F [auth C] MOL2 format, chain D [auth B] MOL2 format, chain E [auth A] MOL2 format, chain F [auth C] mmCIF format, chain D [auth B] mmCIF format, chain E [auth A] mmCIF format, chain F [auth C]	D [auth B], E [auth A], F [auth C]	(3R,7Z)-3-hydroxy-N-[(3S)-2-oxo-2,3-dihydrofuran-3-yl]tetradec-7-enamide C₁₈ H₃₁ N O₄ GFSFGXWHLLUVRK-KTYGHDLGSA-N		Interactions Focus chain D [auth B] Focus chain E [auth A] Focus chain F [auth C] Interactions & Density Focus chain D [auth B] Focus chain E [auth A] Focus chain F [auth C]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.06 Å
R-Value Free: 0.294 (Depositor), 0.297 (DCC)
R-Value Work: 0.256 (Depositor), 0.256 (DCC)
R-Value Observed: 0.258 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.1	α = 90
b = 120.793	β = 98.58
c = 122.601	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
autoPROC	data reduction
autoPROC	data scaling
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-09-23

Deposition Author(s):

Stoutland, I.M.

Blackwell, H.E.

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	2R35GM131817

Revision History (Full details and data files)

Version 1.0: 2026-09-23
Type: Initial release