2O1K | pdb_00002o1k

Structure of the extended diarrhea-inducing domain of rotavirus enterotoxigenic protein NSP4

PDB DOI: https://doi.org/10.2210/pdb2O1K/pdb

Classification: VIRAL PROTEIN
Organism(s): Simian rotavirus A/SA11
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2006-11-29 Released: 2006-12-26
Deposition Author(s): Deepa, R., Suguna, K., Durga Rao, C.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.67 Å
R-Value Free:
0.233 (Depositor), 0.245 (DCC)
R-Value Work:
0.188 (Depositor), 0.200 (DCC)
R-Value Observed:
0.190 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.4 of the entry. See complete history.

Literature

Structure of the extended diarrhea-inducing domain of rotavirus enterotoxigenic protein

Deepa, R., Durga Rao, C., Suguna, K.

To be published.

Macromolecule Content

Total Structure Weight: 12.71 kDa
Atom Count: 792
Modeled Residue Count: 86
Deposited Residue Count: 104
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Non-structural glycoprotein NSP4	A, B	52	Simian rotavirus A/SA11	Mutation(s): 0 Gene Names: G10
UniProt
Find proteins for P04512 (Rotavirus A (strain RVA/SA11-Both/G3P5B[2])) Explore P04512 Go to UniProtKB: P04512
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P04512
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CA Query on CA Download:Ideal Coordinates CCD File SDF format, chain C [auth B] MOL2 format, chain C [auth B] mmCIF format, chain C [auth B]	C [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain C [auth B] Interactions & Density Focus chain C [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.67 Å
R-Value Free: 0.233 (Depositor), 0.245 (DCC)
R-Value Work: 0.188 (Depositor), 0.200 (DCC)
R-Value Observed: 0.190 (Depositor)

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 30.692	α = 90
b = 38.09	β = 90
c = 182.354	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MAR345	data collection
MOSFLM	data reduction
CCP4	data scaling
AMoRE	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2006-12-26

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2006-12-26
Type: Initial release
Version 1.1: 2008-05-01
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Advisory, Derived calculations, Version format compliance
Version 1.3: 2017-10-18
Changes: Refinement description
Version 1.4: 2023-10-25
Changes: Data collection, Database references, Derived calculations, Refinement description

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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.