9KOO | pdb_00009koo

Ligand binding domain of Pseudomonas Aeruginosa PAO1 chemoreceptor PctA in complex with MHF

PDB DOI: https://doi.org/10.2210/pdb9KOO/pdb

Classification: SIGNALING PROTEIN
Organism(s): Pseudomonas aeruginosa PAO1
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2024-11-21 Released: 2025-11-26
Deposition Author(s): Songying, O., Yanbo, Z., Lei, Z., Xinyu, Q.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.70 Å
R-Value Free:
0.260 (Depositor), 0.259 (DCC)
R-Value Work:
0.207 (Depositor), 0.205 (DCC)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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Ligand Structure Quality Assessment

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

Literature

Ligand binding domain of Pseudomonas Aeruginosa PAO1 chemoreceptor PctA in complex with MHF

Songying, O., Yanbo, Z., Lei, Z., Xinyu, Q.

To be published.

Macromolecule Content

Total Structure Weight: 60.78 kDa
Atom Count: 3,788
Modeled Residue Count: 470
Deposited Residue Count: 556
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Methyl-accepting chemotaxis protein PctA	A, B	278	Pseudomonas aeruginosa PAO1	Mutation(s): 0 Gene Names: pctA, PA4309
UniProt
Find proteins for G3XD24 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore G3XD24 Go to UniProtKB: G3XD24
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	G3XD24
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
4XX (Subject of Investigation/LOI) Query on 4XX Download:Ideal Coordinates CCD File SDF format, chain D [auth B] SDF format, chain C [auth A] MOL2 format, chain D [auth B] MOL2 format, chain C [auth A] mmCIF format, chain D [auth B] mmCIF format, chain C [auth A]	C [auth A], D [auth B]	4-hydroxy-5-methylfuran-3(2H)-one C₅ H₆ O₃ DLVYTANECMRFGX-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.70 Å
R-Value Free: 0.260 (Depositor), 0.259 (DCC)
R-Value Work: 0.207 (Depositor), 0.205 (DCC)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 70.972	α = 90
b = 76.166	β = 90
c = 117.802	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHENIX	phasing

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

& Funding Information

Deposition Data

Released Date: 2025-11-26

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History (Full details and data files)

Version 1.0: 2025-11-26
Type: Initial release

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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.