4J15 Ligase date Feb 01, 2013
title Crystal Structure Of Human Cytosolic Aspartyl-Trna Synthetas Component Of Multi-Trna Synthetase Complex
authors K.R.Kim, S.H.Park, H.S.Kim, B.G.Kim, D.G.Kim, K.H.Rhee, M.S.Park, S.Kim, B.W.Han
compound source
Molecule: Aspartate--Trna Ligase, Cytoplasmic
Chain: A, B
Synonym: Aspartyl-Trna Synthetase, Asprs, Cell Proliferatio Gene 40 Protein;
Ec: 6.1.1.12
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dars
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.197 R_Free 0.228
crystal
cell
length a length b length c angle alpha angle beta angle gamma
54.885 141.921 68.495 90.00 102.19 90.00
method X-Ray Diffractionresolution 2.24 Å
ligand GOL enzyme Ligase E.C.6.1.1.12 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceCrystal structure of human cytosolic aspartyl-tRNA synthetase, a component of multi-tRNA synthetase complex., Kim KR, Park SH, Kim HS, Rhee KH, Kim BG, Kim DG, Park MS, Kim HJ, Kim S, Han BW, Proteins. 2013 Apr 23. doi: 10.1002/prot.24306. PMID:23609930
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (154 Kb) [Save to disk]
  • Biological Unit Coordinates (4j15.pdb1.gz) 148 Kb
  • LPC: Ligand-Protein Contacts for 4J15
  • CSU: Contacts of Structural Units for 4J15
  • Structure Factors (700 Kb)
  • Retrieve 4J15 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4J15 from S2C, [Save to disk]
  • Re-refined 4j15 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4J15 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 4J15
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4J15, from MSDmotif at EBI
  • Fold representative 4j15 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4j15] [4j15_A] [4j15_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4J15
  • Community annotation for 4J15 at PDBWiki (http://pdbwiki.org)

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