1PMO Lyase date Jun 11, 2003
title Crystal Structure Of Escherichia Coli Gadb (Neutral Ph)
authors G.Capitani, D.De Biase, C.Aurizi, H.Gut, F.Bossa, M.G.Grutter
compound source
Molecule: Glutamate Decarboxylase Beta
Chain: A, B, C, D, E, F
Fragment: Gadb
Synonym: Gad-Beta
Ec: 4.1.1.15
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: Gadb
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Jm109
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pqe60
symmetry Space Group: P 32
R_factor 0.200 R_Free 0.233
crystal
cell
length a length b length c angle alpha angle beta angle gamma
115.995 115.995 207.350 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.30 Å
ligand PLR, TRS enzyme Lyase E.C.4.1.1.15 BRENDA
related structures by homologous chain: 1XEY
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Primary referenceCrystal structure and functional analysis of Escherichia coli glutamate decarboxylase., Capitani G, De Biase D, Aurizi C, Gut H, Bossa F, Grutter MG, EMBO J 2003 Aug 15;22(16):4027-37. PMID:12912902
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (459 Kb) [Save to disk]
  • Biological Unit Coordinates (1pmo.pdb1.gz) 453 Kb
  • LPC: Ligand-Protein Contacts for 1PMO
  • CSU: Contacts of Structural Units for 1PMO
  • Likely Quarternary Molecular Structure file(s) for 1PMO
  • Structure Factors (1092 Kb)
  • Retrieve 1PMO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PMO from S2C, [Save to disk]
  • Re-refined 1pmo structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1PMO 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 1PMO
  • 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 1PMO, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1pmoa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1pmob_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1pmoc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1pmod_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1pmoe_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1pmof_, region F [Jmol] [rasmolscript] [script source]
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1pmo_E] [1pmo_A] [1pmo_C] [1pmo_B] [1pmo_F] [1pmo] [1pmo_D]
  • SWISS-PROT database: [P69910]
  • Domain organization of [DCEB_ECOLI] by SWISSPFAM
  • Other resources with information on 1PMO
  • Community annotation for 1PMO 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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