2AKE Ligase Rna date Aug 03, 2005
title Structure Of Human Tryptophanyl-Trna Synthetase In Complex W Trna(Trp)
authors N.Shen, L.Guo, B.Yang, Y.Jin, J.Ding
compound source
Molecule: Transfer Rna-Trp
Chain: B
Synonym: Trna(Trp)
Engineered: Yes
Organism_scientific: Bos Taurus
Organism_common: Cattle
Organism_taxid: 9913
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Jm109
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgem-9zf(-)

Molecule: Tryptophanyl-Trna Synthetase
Chain: A
Fragment: Aminoacylation Catalytic Fragment
Synonym: Tryptophan--Trna Ligase, Trprs, Ifp53, Hwrs
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Wars, Wrs
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)-Codonplus
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet24a(+)
symmetry Space Group: P 43 2 2
R_factor 0.230 R_Free 0.270
length a length b length c angle alpha angle beta angle gamma
133.200 133.200 138.300 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.10 Å
ligand SO4, TRP enzyme Ligase E.C. BRENDA

Primary referenceStructure of human tryptophanyl-tRNA synthetase in complex with tRNATrp reveals the molecular basis of tRNA recognition and specificity., Shen N, Guo L, Yang B, Jin Y, Ding J, Nucleic Acids Res. 2006 Jun 23;34(11):3246-58. Print 2006. PMID:16798914
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (94 Kb) [Save to disk]
  • Biological Unit Coordinates (2ake.pdb1.gz) 177 Kb
  • LPC: Ligand-Protein Contacts for 2AKE
  • CSU: Contacts of Structural Units for 2AKE
  • Likely Quarternary Molecular Structure file(s) for 2AKE
  • Structure Factors (375 Kb)
  • Retrieve 2AKE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2AKE from S2C, [Save to disk]
  • Re-refined 2ake structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2AKE 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 2AKE
  • 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 2AKE, from MSDmotif at EBI
  • Fold representative 2ake from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ake_A] [2ake] [2ake_B]
  • SWISS-PROT database: [P23381]
  • Domain organization of [SYWC_HUMAN] by SWISSPFAM
  • Other resources with information on 2AKE
  • Community annotation for 2AKE at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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