1FFY Ligase Rna date Jul 26, 2000
title Insights Into Editing From An Ile-Trna Synthetase Structure With Trna(Ile) And Mupirocin
authors L.F.Silvian, J.Wang, T.A.Steitz
compound source
Molecule: Isoleucyl-Trna
Chain: T
Engineered: Yes
Synthetic: Yes
Other_details: In Vitro Transcription Of E.Coli Trna Sequence;

Molecule: Isoleucyl-Trna Synthetase
Chain: A
Synonym: Isoleucine--Trna Ligase, Ilers
Ec: 6.1.1.5
Engineered: Yes

Organism_scientific: Staphylococcus Aureus
Organism_taxid: 1280
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.239 R_Free 0.281
crystal
cell
length a length b length c angle alpha angle beta angle gamma
71.000 100.000 186.000 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand K, MG, MRC, ZN enzyme Ligase E.C.6.1.1.5 BRENDA
note 1FFY (Molecule of the Month:pdb16)
related structures by homologous chain: 1QU2, 1QU3
Gene
Ontology
ChainFunctionProcessComponent
A
  • aminoacyl-tRNA editing activ...


  • Primary referenceInsights into editing from an ile-tRNA synthetase structure with tRNAile and mupirocin., Silvian LF, Wang J, Steitz TA, Science 1999 Aug 13;285(5430):1074-7. PMID:10446055
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (195 Kb) [Save to disk]
  • Biological Unit Coordinates (1ffy.pdb1.gz) 187 Kb
  • LPC: Ligand-Protein Contacts for 1FFY
  • CSU: Contacts of Structural Units for 1FFY
  • Likely Quarternary Molecular Structure file(s) for 1FFY
  • Retrieve 1FFY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1FFY from S2C, [Save to disk]
  • View 1FFY 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 1FFY
  • 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
  • 3D motif for 1FFY, from MSDmotif at EBI
  • Structure summary from SCOR (Structural Classification of RNA)
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ffya3, region A:1-200,A:395-644 [Jmol] [rasmolscript] [script source]
        - Domain d1ffya2, region A:201-394 [Jmol] [rasmolscript] [script source]
        - Domain d1ffya1, region A:645-917 [Jmol] [rasmolscript] [script source]
  • Fold representative 1ffy from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1ffy_T] [1ffy_A] [1ffy]
  • SWISS-PROT database: [P41972]
  • Domain organization of [SYI1_STAAU] by SWISSPFAM
  • Other resources with information on 1FFY
  • Community annotation for 1FFY 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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