1PYS Aminoacyl-Trna Synthetase date Nov 14, 1996
title Phenylalanyl-Trna Synthetase From Thermus Thermophilus
authors M.Safro, L.Mosyak, Y.Goldgur, L.Reshetnikova, M.Delarue
compound source
Molecule: Phenylalanyl-Trna Synthetase
Chain: A
Ec: 6.1.1.20
 Organism_scientific: Thermus Thermophilus
Organism_taxid: 300852
Strain: Hb8

Molecule: Phenylalanyl-Trna Synthetase
Chain: B
Ec: 6.1.1.20
Organism_scientific: Thermus Thermophilus
Organism_taxid: 300852
Strain: Hb8
symmetry Space Group: P 32 2 1
R_factor 0.177 R_Free 0.236
crystal
cell
length a length b length c angle alpha angle beta angle gamma
176.000 176.000 141.700 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.90 Å
ligand MG enzyme Ligase E.C.6.1.1.20 BRENDA
related structures by homologous chain: 1B70
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceStructure of phenylalanyl-tRNA synthetase from Thermus thermophilus., Mosyak L, Reshetnikova L, Goldgur Y, Delarue M, Safro MG, Nat Struct Biol 1995 Jul;2(7):537-47. PMID:7664121
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (217 Kb) [Save to disk]
  • Biological Unit Coordinates (1pys.pdb1.gz) 421 Kb
  • LPC: Ligand-Protein Contacts for 1PYS
  • CSU: Contacts of Structural Units for 1PYS
  • Likely Quarternary Molecular Structure file(s) for 1PYS
  • Structure Factors (342 Kb)
  • Retrieve 1PYS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PYS from S2C, [Save to disk]
  • Re-refined 1pys structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1PYS 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 1PYS
  • 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
  • 3D motif for 1PYS, from MSDmotif at EBI
  • Genome occurence of 1PYS's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1pysa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1pysb1, region B:1-38,B:152-190 [Jmol] [rasmolscript] [script source]
        - Domain d1pysb6, region B:191-399 [Jmol] [rasmolscript] [script source]
        - Domain d1pysb3, region B:39-151 [Jmol] [rasmolscript] [script source]
        - Domain d1pysb2, region B:400-474 [Jmol] [rasmolscript] [script source]
        - Domain d1pysb5, region B:475-681 [Jmol] [rasmolscript] [script source]
        - Domain d1pysb4, region B:682-785 [Jmol] [rasmolscript] [script source]
  • 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: [1pys_A] [1pys] [1pys_B]
  • SWISS-PROT database: [Q5SGX2] [Q5SGX1]
  • Domain organization of [SYFA_THET8] [SYFB_THET8] by SWISSPFAM
  • Domains found in 1PYS: [B3_4] [B5] [FDX-ACB ] by SMART
    • Other resources with information on 1PYS
  • Community annotation for 1PYS 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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