1PHW Transferase date May 29, 2003
title Crystal Structure Of Kdo8p Synthase In Its Binary Complex Wi Substrate Analog 1-Deoxy-A5p
authors R.Vainer, V.Belakhov, E.Rabkin, T.Baasov, N.Adir
compound source
Molecule: 2-Dehydro-3-Deoxyphosphooctonate Aldolase
Chain: A
Synonym: Phospho-2-Dehydro-3-Deoxyoctonate Aldolase, 3-Deox Octulosonic Acid 8-Phosphate Synthetase, Kdo-8-Phosphate Sy Kdo 8-P Synthase;
Ec: 2.5.1.55
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: Kdsa
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: I 2 3
R_factor 0.237 R_Free 0.313
crystal
cell
length a length b length c angle alpha angle beta angle gamma
118.258 118.258 118.258 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.36 Å
ligand
enzyme Transferase E.C.2.5.1.55 BRENDA
related structures by homologous chain: 1D9E, 1O60
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal Structures of Escherichia coli KDO8P Synthase Complexes Reveal the Source of Catalytic Irreversibility., Vainer R, Belakhov V, Rabkin E, Baasov T, Adir N, J Mol Biol 2005 Aug 19;351(3):641-52. PMID:16023668
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (48 Kb) [Save to disk]
  • Biological Unit Coordinates (1phw.pdb1.gz) 169 Kb
  • CSU: Contacts of Structural Units for 1PHW
  • Likely Quarternary Molecular Structure file(s) for 1PHW
  • Structure Factors (104 Kb)
  • Retrieve 1PHW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PHW from S2C, [Save to disk]
  • Re-refined 1phw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1PHW 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 1PHW
  • 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 1PHW, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1phwa_, region A [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: [1phw] [1phw_A]
  • SWISS-PROT database: [P0A715]
  • Domain organization of [KDSA_ECOLI] by SWISSPFAM
  • Other resources with information on 1PHW
  • Community annotation for 1PHW 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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