Macromolecule Content

Total Structure Weight: 114.98 kDa
Atom Count: 6,256
Modelled Residue Count: 784
Deposited Residue Count: 1,018
Unique protein chains: 1

4X5O

Human histidine tRNA synthetase

PDB DOI: https://doi.org/10.2210/pdb4X5O/pdb

Classification: LIGASE
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2014-12-05 Released: 2015-11-25
Deposition Author(s): Kim, Y.K., Jeon, Y.H.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.80 Å
R-Value Free: 0.314
R-Value Work: 0.248
R-Value Observed: 0.252

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Re-refinement Note

A newer entry is available that reflects an alternative modeling of the original data: 6O76

Literature

Structural characteristics of human histidyl-tRNA synthetase

Kim, Y.K., Chang, J.E., Kim, S., Jeon, Y.H.

(2015) Korean Soc Struct Biology 2: 142-148

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Histidine--tRNA ligase, cytoplasmic	A, B	509	Homo sapiens	Mutation(s): 0 Gene Names: HARS, HRS, HARS1 EC: 6.1.1.21
UniProt & NIH Common Fund Data Resources
Find proteins for P12081 (Homo sapiens) Explore P12081 Go to UniProtKB: P12081
PHAROS: P12081
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P12081
Protein Feature View Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.80 Å
R-Value Free: 0.314
R-Value Work: 0.248
R-Value Observed: 0.252
Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 97.669	α = 90
b = 97.669	β = 90
c = 254.409	γ = 90

Software Package:

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

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2015-11-25

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2015-11-25
Type: Initial release
Version 1.1: 2020-02-05
Changes: Data collection, Derived calculations

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.