5C82 | pdb_00005c82

Crystal structure of Nourseothricin acetyltransferase

PDB DOI: https://doi.org/10.2210/pdb5C82/pdb

Classification: TRANSFERASE
Organism(s): Streptomyces noursei
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2015-06-25 Released: 2016-06-29
Deposition Author(s): Kumar, D., Ghosh, A., Taneja, B., Chakraborty, K.
Funding Organization(s): CSIR-IGIB

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.20 Å
R-Value Free:
0.224 (Depositor), 0.219 (DCC)
R-Value Work:
0.181 (Depositor), 0.181 (DCC)
R-Value Observed:
0.183 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 5C82

This is version 2.1 of the entry. See complete history.

Literature

Crystal structure of Nourseothricin acetyltransferase

Kumar, D., Ghosh, A., Taneja, B., Chakraborty, K.

To be published.

Macromolecule Content

Total Structure Weight: 20.94 kDa
Atom Count: 1,413
Modeled Residue Count: 170
Deposited Residue Count: 190
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nourseothricin acetyltransferase	A	190	Streptomyces noursei	Mutation(s): 1 Gene Names: nat1
UniProt
Find proteins for Q08414 (Streptomyces noursei) Explore Q08414 Go to UniProtKB: Q08414
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q08414
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
TAR Query on TAR 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]	D(-)-TARTARIC ACID C₄ H₆ O₆ FEWJPZIEWOKRBE-LWMBPPNESA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.20 Å
R-Value Free: 0.224 (Depositor), 0.219 (DCC)
R-Value Work: 0.181 (Depositor), 0.181 (DCC)
R-Value Observed: 0.183 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 96.536	α = 90
b = 44.641	β = 97.67
c = 42.244	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
XDS	data reduction
Aimless	data scaling
XDS	data scaling
PHENIX	phasing

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2016-06-29

Deposition Author(s):

Chakraborty, K.

Funding Organization	Location	Grant Number
CSIR-IGIB	India	--

Revision History (Full details and data files)

Version 1.0: 2016-06-29
Type: Initial release
Version 2.0: 2018-07-04
Changes: Data collection, Database references, Derived calculations, Polymer sequence
Version 2.1: 2024-11-06
Changes: Data collection, Database references, Structure summary

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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.