1HFE Hydrogenase date Nov 11, 1998
title 1.6 A Resolution Structure Of The Fe-Only Hydrogenase From Desulfovibrio Desulfuricans
authors Y.Nicolet, C.Piras, P.Legrand, E.C.Hatchikian, J.C.Fontecilla-Ca
compound source
Molecule: Protein (Fe-Only Hydrogenase (E.C.1.18.99.1) (Sma Subunit));
Chain: S, T
Ec: 1.18.99.1
Other_details: The Fe-Only Hydrogenase From Desulfovibrio Desulfuricans Has Exactly The Same Sequence As The Fe-Only Hydrogenase From Desulfovibrio Vulgaris (Strain Hildenborou
Organism_scientific: Desulfovibrio Vulgaris Subsp. Vulgaris Hildenborough;
Organism_taxid: 882
Strain: Hildenborough Atcc 29579 Ncimb 8303
Atcc: 7757
Cellular_location: Periplasm

Molecule: Protein (Fe-Only Hydrogenase (E.C.1.18.99.1) (Lar Subunit));
Chain: L, M
Ec: 1.18.99.1
Other_details: The Fe-Only Hydrogenase From Desulfovibrio Desulfuricans Has Exactly The Same Sequence As The Fe-Only Hydrogenase From Desulfovibrio Vulgaris (Strain Hildenborou

Organism_scientific: Desulfovibrio Vulgaris Subsp. Vulgaris Hildenborough;
Organism_taxid: 882
Strain: Hildenborough Atcc 29579 Ncimb 8303
Atcc: 7757
Cellular_location: Periplasm
symmetry Space Group: P 21 21 2
R_factor 0.158 R_Free 0.182
crystal
cell
length a length b length c angle alpha angle beta angle gamma
128.970 123.070 65.070 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.60 Å
ligand CMO, CYN, CYS, FE2, PDT, SF4, ZN enzyme Oxidoreductase E.C.1.18.99.1 BRENDA
note 1HFE (Molecule of the Month:pdb111)is a representative structure
related structures by homologous chain: 1GX7
Gene
Ontology
ChainFunctionProcessComponent
M, L


S, T


Primary referenceDesulfovibrio desulfuricans iron hydrogenase: the structure shows unusual coordination to an active site Fe binuclear center., Nicolet Y, Piras C, Legrand P, Hatchikian CE, Fontecilla-Camps JC, Structure Fold Des 1999 Jan 15;7(1):13-23. PMID:10368269
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (185 Kb) [Save to disk]
  • Biological Unit Coordinates (1hfe.pdb1.gz) 91 Kb
  • Biological Unit Coordinates (1hfe.pdb2.gz) 91 Kb
  • Biological Unit Coordinates (1hfe.pdb3.gz) 178 Kb
  • LPC: Ligand-Protein Contacts for 1HFE
  • CSU: Contacts of Structural Units for 1HFE
  • Likely Quarternary Molecular Structure file(s) for 1HFE
  • Retrieve 1HFE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1HFE from S2C, [Save to disk]
  • View 1HFE 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 1HFE
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1HFE, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1hfel2, region L:2-86 [Jmol] [rasmolscript] [script source]
        - Domain d1hfel1, region L:87-398 [Jmol] [rasmolscript] [script source]
        - Domain d1hfem2, region M:2-86 [Jmol] [rasmolscript] [script source]
        - Domain d1hfem1, region M:87-398 [Jmol] [rasmolscript] [script source]
        - Domain d1hfes_, region S [Jmol] [rasmolscript] [script source]
        - Domain d1hfet_, region T [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: [1hfe_L] [1hfe_M] [1hfe_T] [1hfe_S] [1hfe]
  • SWISS-PROT database: [P07598] [P07603]
  • Domain organization of [PHFL_DESVH] [PHFS_DESVH] by SWISSPFAM
  • Domain found in 1HFE: [Fe_hyd_SSU ] by SMART
  • Other resources with information on 1HFE
  • Community annotation for 1HFE 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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