1E08 Hydrogenase date Mar 13, 2000
title Structural Model Of The [Fe]-Hydrogenasecytochrome C553 Com Combining Nmr And Soft-Docking
authors X.Morelli, M.Czjzek, C.E.Hatchikian, O.Bornet, J.C.Fontecilla-Ca N.P.Palma, J.J.G.Moura, F.Guerlesquin
compound source
Molecule: [Fe]-Hydrogenase (Large Subunit)
Chain: A
Organism_scientific: Desulfovibrio Desulfuricans
Organism_taxid: 876
Atcc: 7757
Cellular_location: Periplasm

Molecule: [Fe]-Hydrogenase (Small Subunit)
Chain: D

Organism_scientific: Desulfovibrio Desulfuricans
Organism_taxid: 876
Atcc: 7757
Cellular_location: Periplasm

Molecule: Cytochrome C553
Chain: E

Organism_scientific: Desulfovibrio Vulgaris
Organism_taxid: 882
Strain: Hildenborough
Cellular_location: Periplasm
methodSolution NMR; Theoretical Model
ligand CMO, CYN, FE2, HEC, PDT, SF4, ZN enzyme
note 1E08 (Molecule of the Month:pdb111)
related structures by homologous chain: 1DWL, 1GX7
Gene
Ontology
ChainFunctionProcessComponent
A


D
  • electron transfer activity


  • E
  • electron transfer activity


  • Primary referenceStructural model of the Fe-hydrogenase/cytochrome c553 complex combining transverse relaxation-optimized spectroscopy experiments and soft docking calculations., Morelli X, Czjzek M, Hatchikian CE, Bornet O, Fontecilla-Camps JC, Palma NP, Moura JJ, Guerlesquin F, J Biol Chem 2000 Jul 28;275(30):23204-10. PMID:10748163
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (96 Kb) [Save to disk]
  • Biological Unit Coordinates (1e08.pdb1.gz) 89 Kb
  • LPC: Ligand-Protein Contacts for 1E08
  • CSU: Contacts of Structural Units for 1E08
  • Original NMR restraints for 1E08 from PDB
  • Retrieve 1E08 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1E08 from S2C, [Save to disk]
  • View 1E08 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 1E08
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1E08, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1e08a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1e08d_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1e08e_, region E [Jmol] [rasmolscript] [script source]
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1e08_E] [1e08_D] [1e08_A] [1e08]
  • SWISS-PROT database: [P04032] [P07598] [P07603]
  • Domain organization of [CY553_DESVH] [PHFL_DESVH] [PHFS_DESVH] by SWISSPFAM
  • Domain found in 1E08: [Fe_hyd_SSU ] by SMART
  • Other resources with information on 1E08
  • Community annotation for 1E08 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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