1H16 Pyruvate Formate-Lyase (E.coli) in complex with Pyruvate and CoA date
authors Becker, A., Kabsch, W.
compound source
symmetry
R_factor
R_Free 0.163
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.53
ligand COA, DTL, MG, NA, PG4, PYR enzyme
note 1H16 is a representative structure
related structures by homologous chain: 1H17
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceX-ray structure of pyruvate formate-lyase in complex with pyruvate and CoA. How the enzyme uses the Cys-418 thiyl radical for pyruvate cleavage., Becker A, Kabsch W, J Biol Chem 2002 Oct 18;277(42):40036-42. Epub 2002 Aug 5. PMID:12163496
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (161 Kb) [Save to disk]
  • Biological Unit Coordinates (1h16.pdb1.gz) 305 Kb
  • LPC: Ligand-Protein Contacts for 1H16
  • CSU: Contacts of Structural Units for 1H16
  • Likely Quarternary Molecular Structure file(s) for 1H16
  • Structure Factors (968 Kb)
  • Retrieve 1H16 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1H16 from S2C, [Save to disk]
  • Re-refined 1h16 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1H16 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 1H16
  • 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 1H16, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1h16a_, 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: [1h16_A] [1h16]
  • SWISS-PROT database: [P09373]
  • Domain organization of [PFLB_ECOLI] by SWISSPFAM
  • Other resources with information on 1H16
  • Community annotation for 1H16 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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