1YNO Lyase date Jan 24, 2005
title High Resolution Structure Of Benzoylformate Decarboxylase Fr Pseudomonas Putida Complexed With Thiamine Thiazolone Dipho
authors A.K.Bera, M.S.Hasson
compound source
Molecule: Benzoylformate Decarboxylase
Chain: A
Synonym: Bfd, Bfdc
Ec: 4.1.1.7
Engineered: Yes
Organism_scientific: Pseudomonas Putida
Organism_taxid: 303
Gene: Mdlc
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Jm105
Expression_system_plasmid: Pkk233-2
symmetry Space Group: I 2 2 2
R_factor 0.124 R_Free 0.155
crystal
cell
length a length b length c angle alpha angle beta angle gamma
80.951 95.460 136.701 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.22 Å
ligand CA, MG, TZD enzyme Lyase E.C.4.1.1.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (95 Kb) [Save to disk]
  • Biological Unit Coordinates (1yno.pdb1.gz) 354 Kb
  • LPC: Ligand-Protein Contacts for 1YNO
  • CSU: Contacts of Structural Units for 1YNO
  • Likely Quarternary Molecular Structure file(s) for 1YNO
  • Structure Factors (1560 Kb)
  • Retrieve 1YNO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YNO from S2C, [Save to disk]
  • Re-refined 1yno structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1YNO 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 1YNO
  • 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 1YNO, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1yno_A] [1yno]
  • SWISS-PROT database: [P20906]
  • Domain organization of [MDLC_PSEPU] by SWISSPFAM
  • Other resources with information on 1YNO
  • Community annotation for 1YNO 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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