2ESD Oxidoreductase date Oct 26, 2005
title Crystal Structure Of Thioacylenzyme Intermediate Of An Nadp Aldehyde Dehydrogenase
authors K.D'Ambrosio, C.Didierjean, E.Benedetti, A.Aubry, C.Corbier
compound source
Molecule: Nadp-Dependent Glyceraldehyde-3-Phosphate Dehydro
Chain: A, B, C, D
Synonym: Nadp-Dependent Nonphosphorylating Glyceraldehyde-3 Dehydrogenase;
Ec: 1.2.1.9
Engineered: Yes
Mutation: Yes
Organism_scientific: Streptococcus Mutans
Organism_taxid: 1309
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Dh5
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pbluescript Sk
symmetry Space Group: P 21 21 2
R_factor 0.198 R_Free 0.248
crystal
cell
length a length b length c angle alpha angle beta angle gamma
142.500 154.900 112.500 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.55 Å
ligand G3H, NAP enzyme Oxidoreductase E.C.1.2.1.9 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceThe first crystal structure of a thioacylenzyme intermediate in the ALDH family: new coenzyme conformation and relevance to catalysis., D'Ambrosio K, Pailot A, Talfournier F, Didierjean C, Benedetti E, Aubry A, Branlant G, Corbier C, Biochemistry. 2006 Mar 7;45(9):2978-86. PMID:16503652
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (312 Kb) [Save to disk]
  • Biological Unit Coordinates (2esd.pdb1.gz) 305 Kb
  • LPC: Ligand-Protein Contacts for 2ESD
  • CSU: Contacts of Structural Units for 2ESD
  • Likely Quarternary Molecular Structure file(s) for 2ESD
  • Structure Factors (657 Kb)
  • Retrieve 2ESD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2ESD from S2C, [Save to disk]
  • Re-refined 2esd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2ESD 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 2ESD
  • 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 2ESD, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2esd_B] [2esd_D] [2esd] [2esd_C] [2esd_A]
  • SWISS-PROT database: [Q59931]
  • Domain organization of [GAPN_STRMU] by SWISSPFAM
  • Other resources with information on 2ESD
  • Community annotation for 2ESD 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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