5Y6L Ligase date Aug 12, 2017
title A Subcomplex Crystal Structure Of Human Cytosolic Aspartyl-T Synthetase And Heterotetrameric Glutathione Transferase-Hom Domains In Multi-Trna Synthetase Complex
authors H.Y.Cho, H.J.Lee, B.S.Kang
compound source
Molecule: Methionine--Trna Ligase, Cytoplasmic
Chain: A
Fragment: Unp Residues 1-224, Mrs N-Terminus Domain
Synonym: Methionyl-Trna Synthetase,Metrs
Ec: 6.1.1.10
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Mars
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Eukaryotic Translation Elongation Factor 1 Epsilo
Chain: B
Fragment: Aimp3 With Additional S Sequence At The N-Terminu
Synonym: Aminoacyl Trna Synthetase Complex-Interacting Multifunctional Protein 3,Elongation Factor P18,Multisyntha Auxiliary Component P18;
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Eef1e1, Aimp3, P18
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Bifunctional Glutamateproline--Trna Ligase
Chain: C
Fragment: Unp Residues 1-175, Eprs Gst-Like Domain
Synonym: Bifunctional Aminoacyl-Trna Synthetase,Cell Prolif Inducing Gene 32 Protein,Glutamatyl-Prolyl-Trna Synthetase;
Ec: 6.1.1.17
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Eprs, Glns, Pars, Qars, Qprs, Pig32
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Aminoacyl Trna Synthase Complex-Interacting Multi Protein 2;
Chain: D
Fragment: Unp Residues 90-320, Aimp2 Gst-Like Domain
Synonym: Multisynthase Complex Auxiliary Component P38,Prot
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Aimp2, Jtv1, Pro0992
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Aspartate--Trna Ligase, Cytoplasmic
Chain: E
Synonym: Aspartyl-Trna Synthetase,Asprs,Cell Proliferation- Gene 40 Protein;
Ec: 6.1.1.12
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dars, Pig40
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.177 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
84.535 98.413 125.919 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand PO4 enzyme Ligase E.C.6.1.1.10 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
B


D


E


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (142 Kb) [Save to disk]
  • Biological Unit Coordinates (5y6l.pdb1.gz) 132 Kb
  • LPC: Ligand-Protein Contacts for 5Y6L
  • CSU: Contacts of Structural Units for 5Y6L
  • Structure Factors (626 Kb)
  • Retrieve 5Y6L in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5Y6L from S2C, [Save to disk]
  • View 5Y6L 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 5Y6L
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5y6l from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5y6l_A] [5y6l_E] [5y6l_D] [5y6l_C] [5y6l_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5Y6L
  • Community annotation for 5Y6L at PDBWiki (http://pdbwiki.org)

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