5EO2 | pdb_00005eo2

Structural and biochemical characterization of the hypothetical protein SAV2348 from Staphylococcus aureus in complex with CoA.

PDB DOI: https://doi.org/10.2210/pdb5EO2/pdb

Classification: HYDROLASE
Organism(s): Staphylococcus aureus subsp. aureus Mu50
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2015-11-10 Released: 2016-02-03
Deposition Author(s): Khandokar, Y.B., Srivastava, P., Forwood, J.K.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.50 Å
R-Value Free:
0.246 (Depositor), 0.246 (DCC)
R-Value Work:
0.212 (Depositor), 0.212 (DCC)
R-Value Observed:
0.213 (Depositor)

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Ligand Structure Quality Assessment

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

Literature

Structural and biochemical characterization of the hypothetical protein SAV2348 from Staphylococcus aureus in complex with CoA

Khandokar, Y.B., Srivastava, P., Forwood, J.K.

To be published.

Macromolecule Content

Total Structure Weight: 119.32 kDa
Atom Count: 7,760
Modeled Residue Count: 878
Deposited Residue Count: 984
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
thioesterase	A, B, C, D, E A, B, C, D, E, F	164	Staphylococcus aureus subsp. aureus Mu50	Mutation(s): 0 Gene Names: SAV2348
UniProt
Find proteins for A0A0H3JSY9 (Staphylococcus aureus (strain Mu50 / ATCC 700699)) Explore A0A0H3JSY9 Go to UniProtKB: A0A0H3JSY9
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A0H3JSY9
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
COA Query on COA Download:Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain H [auth B] SDF format, chain I [auth B] SDF format, chain J [auth D] SDF format, chain K [auth F] SDF format, chain L [auth F] MOL2 format, chain G [auth A] MOL2 format, chain H [auth B] MOL2 format, chain I [auth B] MOL2 format, chain J [auth D] MOL2 format, chain K [auth F] MOL2 format, chain L [auth F] mmCIF format, chain G [auth A] mmCIF format, chain H [auth B] mmCIF format, chain I [auth B] mmCIF format, chain J [auth D] mmCIF format, chain K [auth F] mmCIF format, chain L [auth F]	G [auth A] H [auth B] I [auth B] J [auth D] K [auth F] G [auth A], H [auth B], I [auth B], J [auth D], K [auth F], L [auth F]	COENZYME A C₂₁ H₃₆ N₇ O₁₆ P₃ S RGJOEKWQDUBAIZ-IBOSZNHHSA-N		Interactions Focus chain G [auth A] Focus chain H [auth B] Focus chain I [auth B] Focus chain J [auth D] Focus chain K [auth F] Focus chain L [auth F] Interactions & Density Focus chain G [auth A] Focus chain H [auth B] Focus chain I [auth B] Focus chain J [auth D] Focus chain K [auth F] Focus chain L [auth F]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.50 Å
R-Value Free: 0.246 (Depositor), 0.246 (DCC)
R-Value Work: 0.212 (Depositor), 0.212 (DCC)
R-Value Observed: 0.213 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 44.98	α = 90
b = 127.63	β = 93.71
c = 97.68	γ = 90

Software Package:

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

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

Deposition Data

Released Date: 2016-02-03

Deposition Author(s):

Khandokar, Y.B.

Revision History (Full details and data files)

Version 1.0: 2016-02-03
Type: Initial release
Version 1.1: 2024-03-06
Changes: Data collection, Database references, Derived calculations

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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.