Macromolecule Content

Total Structure Weight: 181.2 kDa
Atom Count: 11,523
Modelled Residue Count: 1,243
Deposited Residue Count: 1,326
Unique protein chains: 1
Unique nucleic acid chains: 1

5YYN

Crystal structures of E.coli arginyl-trna synthetase (argrs) in complex with substrate TRNA(Arg)

PDB DOI: https://doi.org/10.2210/pdb5YYN/pdb
NDB: 5YYN

Classification: LIGASE/RNA
Organism(s): Escherichia coli K-12, Geobacillus stearothermophilus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2017-12-10 Released: 2018-12-12
Deposition Author(s): Zhou, M., Ye, S., Stephen, P., Zhang, R.G., Wang, E.D., Giege, R., Lin, S.X.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free: 0.268
R-Value Work: 0.220
R-Value Observed: 0.223

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Crystal Structures Of E.Coli Arginyl-Trna Synthetase (Argrs) In Complex With Substrates

Zhou, M., Ye, S., Stephen, P., Zhang, R.G., Wang, E.D., Giege, R., Lin, S.X.

To be published.

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Arginine--tRNA ligase	A, C	586	Escherichia coli K-12	Mutation(s): 0 Gene Names: argS, b1876, JW1865 EC: 6.1.1.19
UniProt
Find proteins for P11875 (Escherichia coli (strain K12)) Explore P11875 Go to UniProtKB: P11875
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P11875
Protein Feature View Expand
Reference Sequence

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(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Length	Organism	Image
TRNA	B, D	77	Geobacillus stearothermophilus
Protein Feature View Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free: 0.268
R-Value Work: 0.220
R-Value Observed: 0.223
Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 102.241	α = 90
b = 102.241	β = 90
c = 480.567	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing
PHENIX	refinement

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2018-12-12

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2018-12-12
Type: Initial release

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.