5Z81 | pdb_00005z81

Trimeric structure of Vibrio cholerae Heat Shock Protein 15 at 2.3 Angstrom resolution

PDB DOI: https://doi.org/10.2210/pdb5Z81/pdb

Classification: CHAPERONE
Organism(s): Vibrio cholerae O395
Expression System: Escherichia coli-Pichia pastoris shuttle vector pPpARG4
Mutation(s): No

Deposited: 2018-01-30 Released: 2018-03-07
Deposition Author(s): Roy Chowdhury, S., Sen, U.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.33 Å
R-Value Free:
0.259 (Depositor), 0.260 (DCC)
R-Value Work:
0.228 (Depositor), 0.231 (DCC)
R-Value Observed:
0.231 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 5Z81

This is version 1.1 of the entry. See complete history.

Literature

Trimeric structure of Vibrio cholerae Heat Shock Protein 15 at 2.3 Angstrom resolution

Roy Chowdhury, S., Sen, U.

To be published.

Macromolecule Content

Total Structure Weight: 45.28 kDa
Atom Count: 2,726
Modeled Residue Count: 297
Deposited Residue Count: 381
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Heat shock protein 15	A, B, C	127	Vibrio cholerae O395	Mutation(s): 0 Gene Names: VC0395_A2308
UniProt
Find proteins for A0A0H3AM46 (Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)) Explore A0A0H3AM46 Go to UniProtKB: A0A0H3AM46
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A0H3AM46
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MPD Query on MPD Download:Ideal Coordinates CCD File SDF format, chain I [auth C] SDF format, chain G [auth B] SDF format, chain E [auth A] MOL2 format, chain I [auth C] MOL2 format, chain G [auth B] MOL2 format, chain E [auth A] mmCIF format, chain I [auth C] mmCIF format, chain G [auth B] mmCIF format, chain E [auth A]	E [auth A], G [auth B], I [auth C]	(4S)-2-METHYL-2,4-PENTANEDIOL C₆ H₁₄ O₂ SVTBMSDMJJWYQN-YFKPBYRVSA-N		Interactions Focus chain E [auth A] Focus chain G [auth B] Focus chain I [auth C] Interactions & Density Focus chain E [auth A] Focus chain G [auth B] Focus chain I [auth C]
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain H [auth C] SDF format, chain F [auth B] SDF format, chain D [auth A] MOL2 format, chain H [auth C] MOL2 format, chain F [auth B] MOL2 format, chain D [auth A] mmCIF format, chain H [auth C] mmCIF format, chain F [auth B] mmCIF format, chain D [auth A]	D [auth A], F [auth B], H [auth C]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain D [auth A] Focus chain F [auth B] Focus chain H [auth C] Interactions & Density Focus chain D [auth A] Focus chain F [auth B] Focus chain H [auth C]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.33 Å
R-Value Free: 0.259 (Depositor), 0.260 (DCC)
R-Value Work: 0.228 (Depositor), 0.231 (DCC)
R-Value Observed: 0.231 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.65	α = 90
b = 90.28	β = 103.92
c = 81.09	γ = 90

Software Package:

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

Structure Validation

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Entry History

Deposition Data

Released Date: 2018-03-07

Deposition Author(s):

Roy Chowdhury, S.

Revision History (Full details and data files)

Version 1.0: 2018-03-07
Type: Initial release
Version 1.1: 2024-03-27
Changes: Data collection, Database references

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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.