1GC0 Lyase date Jul 06, 2000
title Crystal Structure Of The Pyridoxal-5'-Phosphate Dependent L- Gamma-Lyase From Pseudomonas Putida
authors H.Motoshima, K.Inagaki, T.Kumasaka, M.Furuichi, H.Inoue, T.Tamura K.Soda, N.Tanaka, M.Yamamoto, H.Tanaka
compound source
Molecule: Methionine Gamma-Lyase
Chain: A, B, C, D
Ec: 4.4.1.11
 Organism_scientific: Pseudomonas Putida
Organism_taxid: 303
symmetry Space Group: P 1
R_factor 0.210 R_Free 0.236
crystal
cell
length a length b length c angle alpha angle beta angle gamma
72.861 81.030 81.282 70.56 63.17 63.38
method X-Ray Diffractionresolution 1.70 Å
ligand LLP enzyme Lyase E.C.4.4.1.11 BRENDA
related structures by homologous chain: 1UKJ
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceCrystal structure of the pyridoxal 5'-phosphate dependent L-methionine gamma-lyase from Pseudomonas putida., Motoshima H, Inagaki K, Kumasaka T, Furuichi M, Inoue H, Tamura T, Esaki N, Soda K, Tanaka N, Yamamoto M, Tanaka H, J Biochem (Tokyo) 2000 Sep;128(3):349-54. PMID:10965031
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (239 Kb) [Save to disk]
  • Biological Unit Coordinates (1gc0.pdb1.gz) 233 Kb
  • LPC: Ligand-Protein Contacts for 1GC0
  • CSU: Contacts of Structural Units for 1GC0
  • Likely Quarternary Molecular Structure file(s) for 1GC0
  • Structure Factors (1546 Kb)
  • Retrieve 1GC0 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1GC0 from S2C, [Save to disk]
  • Re-refined 1gc0 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1GC0 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 1GC0
  • 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 1GC0, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1gc0a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1gc0b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1gc0c_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1gc0d_, region D [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: [1gc0_B] [1gc0_D] [1gc0] [1gc0_A] [1gc0_C]
  • SWISS-PROT database: [P13254]
  • Domain organization of [MEGL_PSEPU] by SWISSPFAM
    • Other resources with information on 1GC0
  • Community annotation for 1GC0 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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