3T0J | pdb_00003t0j

Crystal structure of inositol monophosphatase - II from Staphylococcus aureus MSSA476

PDB DOI: https://doi.org/10.2210/pdb3T0J/pdb

Classification: HYDROLASE
Organism(s): Staphylococcus aureus subsp. aureus MSSA476
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2011-07-20 Released: 2012-07-25
Deposition Author(s): Dutta, A., Bhattacharyya, S., Dutta, D., Das, A.K.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.59 Å
R-Value Free:
0.268 (Depositor), 0.240 (DCC)
R-Value Work:
0.183 (Depositor)
R-Value Observed:
0.187 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of inositol monophosphatase - II from Staphylococcus aureus MSSA476

Dutta, A., Bhattacharyya, S., Dutta, D., Das, A.K.

To be published.

Macromolecule Content

Total Structure Weight: 127.39 kDa
Atom Count: 8,500
Modeled Residue Count: 1,048
Deposited Residue Count: 1,132
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Inositol monophosphatase family protein	A, B, C, D	283	Staphylococcus aureus subsp. aureus MSSA476	Mutation(s): 0 Gene Names: SAS1042

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PG4 Query on PG4 Download:Ideal Coordinates CCD File SDF format, chain N [auth D] SDF format, chain M [auth D] SDF format, chain J [auth B] SDF format, chain H [auth A] SDF format, chain G [auth A] SDF format, chain F [auth A] MOL2 format, chain N [auth D] MOL2 format, chain M [auth D] MOL2 format, chain J [auth B] MOL2 format, chain H [auth A] MOL2 format, chain G [auth A] MOL2 format, chain F [auth A] mmCIF format, chain N [auth D] mmCIF format, chain M [auth D] mmCIF format, chain J [auth B] mmCIF format, chain H [auth A] mmCIF format, chain G [auth A] mmCIF format, chain F [auth A]	F [auth A] G [auth A] H [auth A] J [auth B] M [auth D] F [auth A], G [auth A], H [auth A], J [auth B], M [auth D], N [auth D]	TETRAETHYLENE GLYCOL C₈ H₁₈ O₅ UWHCKJMYHZGTIT-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain G [auth A] Focus chain H [auth A] Focus chain J [auth B] Focus chain M [auth D] Focus chain N [auth D] Interactions & Density Focus chain F [auth A] Focus chain G [auth A] Focus chain H [auth A] Focus chain J [auth B] Focus chain M [auth D] Focus chain N [auth D]
PO4 Query on PO4 Download:Ideal Coordinates CCD File SDF format, chain L [auth D] SDF format, chain K [auth C] SDF format, chain I [auth B] SDF format, chain E [auth A] MOL2 format, chain L [auth D] MOL2 format, chain K [auth C] MOL2 format, chain I [auth B] MOL2 format, chain E [auth A] mmCIF format, chain L [auth D] mmCIF format, chain K [auth C] mmCIF format, chain I [auth B] mmCIF format, chain E [auth A]	E [auth A], I [auth B], K [auth C], L [auth D]	PHOSPHATE ION O₄ P NBIIXXVUZAFLBC-UHFFFAOYSA-K		Interactions Focus chain E [auth A] Focus chain I [auth B] Focus chain K [auth C] Focus chain L [auth D] Interactions & Density Focus chain E [auth A] Focus chain I [auth B] Focus chain K [auth C] Focus chain L [auth D]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.59 Å
R-Value Free: 0.268 (Depositor), 0.240 (DCC)
R-Value Work: 0.183 (Depositor)
R-Value Observed: 0.187 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 179.137	α = 90
b = 55.209	β = 124.33
c = 149.47	γ = 90

Software Package:

Software Name	Purpose
SCALA	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
XSCALE	data scaling
PHASER	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2012-07-25

Deposition Author(s):

Bhattacharyya, S.

Revision History (Full details and data files)

Version 1.0: 2012-07-25
Type: Initial release
Version 1.1: 2024-03-20
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.