9KP3 | pdb_00009kp3

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

PDB DOI: https://doi.org/10.2210/pdb9KP3/pdb

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

Deposited: 2024-11-22 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: 2.74 Å
R-Value Free:
0.259 (Depositor), 0.257 (DCC)
R-Value Work:
0.222 (Depositor), 0.222 (DCC)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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Ligand Structure Quality Assessment

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Literature

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

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

To be published.

Macromolecule Content

Total Structure Weight: 79.45 kDa
Atom Count: 4,568
Modeled Residue Count: 572
Deposited Residue Count: 720
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Chemotaxis transducer	A, B	360	Pseudomonas aeruginosa	Mutation(s): 0 Gene Names: pctC_4, pctC_1, CAZ10_23540, CCBH4851_00485, GUL26_11790, IPC1295_00345, PAERUG_P19_London_7_VIM_2_05_10_05471
UniProt
Find proteins for Q9I0I4 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore Q9I0I4 Go to UniProtKB: Q9I0I4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9I0I4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 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] MOL2 format, chain D [auth B] mmCIF format, chain D [auth B]	D [auth B]	4-hydroxy-5-methylfuran-3(2H)-one C₅ H₆ O₃ DLVYTANECMRFGX-UHFFFAOYSA-N		Interactions Focus chain D [auth B] Interactions & Density Focus chain D [auth B]
PEG Query on PEG Download:Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.74 Å
R-Value Free: 0.259 (Depositor), 0.257 (DCC)
R-Value Work: 0.222 (Depositor), 0.222 (DCC)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.8	α = 90
b = 124.911	β = 99.41
c = 58.335	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.