1WU7

Crystal structure of histidyl-tRNA synthetase from Thermoplasma acidophilum

PDB DOI: https://doi.org/10.2210/pdb1WU7/pdb

Classification: LIGASE
Organism(s): Thermoplasma acidophilum
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2004-12-01 Released: 2005-12-06
Deposition Author(s): Tanaka, Y., Sakai, N., Yao, M., Watanabe, N., Tamura, T., Tanaka, I.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free: 0.263
R-Value Work: 0.210
R-Value Observed: 0.210

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Crystal structure of histidyl-tRNA synthetase from Thermoplasma acidophilum

Tanaka, Y., Sakai, N., Yao, M., Watanabe, N., Tamura, T., Tanaka, I.

To be published.

Macromolecule Content

Total Structure Weight: 100.03 kDa
Atom Count: 6,955
Modelled Residue Count: 844
Deposited Residue Count: 868
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Histidyl-tRNA synthetase	A, B	434	Thermoplasma acidophilum	Mutation(s): 14 Gene Names: hisS EC: 6.1.1.21
UniProt
Find proteins for Q9HLX5 (Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165)) Explore Q9HLX5 Go to UniProtKB: Q9HLX5
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9HLX5
Sequence Annotations Expand
Reference Sequence

Small Molecules

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free: 0.263
R-Value Work: 0.210
R-Value Observed: 0.210
Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.696	α = 90
b = 101.734	β = 90
c = 167.23	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
SOLVE	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2005-12-06

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2005-12-06
Type: Initial release
Version 1.1: 2008-04-30
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.