8XZU | pdb_00008xzu

HosA transcriptional regulator from enteropathogenic Escherichia coli O127:H6 (strain E2348/69) bound with 4-hydroxy benzoic acid - Conformation II at 2.33 angstrom resolution

PDB DOI: https://doi.org/10.2210/pdb8XZU/pdb

Classification: DNA BINDING PROTEIN
Organism(s): Escherichia coli O127:H6 str. E2348/69
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2024-01-21 Released: 2024-08-28
Deposition Author(s): Manjunath, K., Goswami, A.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.33 Å
R-Value Free:
0.253 (Depositor), 0.255 (DCC)
R-Value Work:
0.234 (Depositor), 0.236 (DCC)
R-Value Observed:
0.236 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 8XZU

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

Re-refinement Note

A newer entry is available that reflects an alternative modeling of the original data: 8YCV

Literature

Horizontally acquired HosA transcription factor bound with 4-hydroxy-benzoic acid exhibits unique tug-of-water dynamics.

Goswami, A., Ullah, S., Brito, J.A.

(2024) bioRxiv

DOI: https://doi.org/10.1101/2024.04.24.590444

Macromolecule Content

Total Structure Weight: 16.84 kDa
Atom Count: 1,102
Modeled Residue Count: 133
Deposited Residue Count: 143
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transcriptional regulator HosA	A	143	Escherichia coli O127:H6 str. E2348/69	Mutation(s): 0 Gene Names: hosA
UniProt
Find proteins for P69782 (Escherichia coli O127:H6 (strain E2348/69 / EPEC)) Explore P69782 Go to UniProtKB: P69782
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P69782
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PHB Query on PHB Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	P-HYDROXYBENZOIC ACID C₇ H₆ O₃ FJKROLUGYXJWQN-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]
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: 2.33 Å
R-Value Free: 0.253 (Depositor), 0.255 (DCC)
R-Value Work: 0.234 (Depositor), 0.236 (DCC)
R-Value Observed: 0.236 (Depositor)

Space Group: P 4₃ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.29	α = 90
b = 67.29	β = 90
c = 95.27	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
iMOSFLM	data reduction
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2024-08-28

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded	India	--

Revision History (Full details and data files)

Version 1.0: 2024-08-28
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.