8P1Y

Arabidopsis thaliana mutated variant C244S of seryl-tRNA synthetase

PDB DOI: https://doi.org/10.2210/pdb8P1Y/pdb

Classification: CYTOSOLIC PROTEIN
Organism(s): Arabidopsis thaliana
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2023-05-13 Released: 2024-05-22
Deposition Author(s): Kekez, I., Soic, R., Rokov-Plavec, J., Matkovic-Calogovic, D.
Funding Organization(s): Croatian Science Foundation

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.60 Å
R-Value Free: 0.266
R-Value Work: 0.208

wwPDB Validation 3D Report Full Report

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

Literature

Arabidopsis thaliana mutated variant C244S of seryl-tRNA synthetase

Kekez, I., Soic, R., Rokov-Plavec, J., Matkovic-Calogovic, D.

To be published.

Macromolecule Content

Total Structure Weight: 52.13 kDa
Atom Count: 3,338
Modelled Residue Count: 416
Deposited Residue Count: 456
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Serine--tRNA ligase, cytoplasmic	A [auth AAA]	456	Arabidopsis thaliana	Mutation(s): 1 Gene Names: At5g27470, F21A20_180 EC: 6.1.1.11
UniProt
Find proteins for Q39230 (Arabidopsis thaliana) Explore Q39230 Go to UniProtKB: Q39230
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q39230
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.60 Å
R-Value Free: 0.266
R-Value Work: 0.208
Space Group: I 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 97.385	α = 90
b = 46.154	β = 93.791
c = 107.605	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
CrysalisPro	data reduction
CrysalisPro	data scaling
AMoRE	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2024-05-22

Deposition Author(s):

Rokov-Plavec, J.

Matkovic-Calogovic, D.

Funding Organization	Location	Grant Number
Croatian Science Foundation	Croatia	IP-2014-09-4274

Revision History (Full details and data files)

Version 1.0: 2024-05-22
Type: Initial release

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 R01GM133198.