The crystal structure of a reduced [NiFeSe] hydrogenase provides an image of the activated catalytic center

scientific article

The crystal structure of a reduced [NiFeSe] hydrogenase provides an image of the activated catalytic center is …
instance of (P31):
scholarly articleQ13442814

External links are
P356DOI10.1016/S0969-2126(99)80072-0
P698PubMed publication ID10378275

P50authorAnne VolbedaQ54918209
P2093author name stringE C Hatchikian
M Frey
J C Fontecilla-Camps
X Vernede
E Garcin
P2860cites workCLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choiceQ24286950
Catalytic properties of an Escherichia coli formate dehydrogenase mutant in which sulfur replaces seleniumQ24561818
Evidence for selenocysteine coordination to the active site nickel in the [NiFeSe]hydrogenases from Desulfovibrio baculatusQ24628999
PROCHECK: a program to check the stereochemical quality of protein structuresQ26778411
MOLSCRIPT: a program to produce both detailed and schematic plots of protein structuresQ26778412
Crystal structure of the nickel-iron hydrogenase from Desulfovibrio gigasQ27730367
Crystal structure of formate dehydrogenase H: catalysis involving Mo, molybdopterin, selenocysteine, and an Fe4S4 clusterQ27734821
Unusual ligand structure in Ni-Fe active center and an additional Mg site in hydrogenase revealed by high resolution X-ray structure analysisQ27748809
Raster3D Version 2.0. A program for photorealistic molecular graphicsQ27860485
Solvent content of protein crystalsQ27860807
Refinement of macromolecular structures by the maximum-likelihood methodQ27861011
The CCP4 suite: programs for protein crystallographyQ27861090
Comparison of super-secondary structures in proteinsQ28245103
Automatic processing of rotation diffraction data from crystals of initially unknown symmetry and cell constantsQ29546524
AMoRe: an automated package for molecular replacementQ29642803
Selenoprotein synthesis in archaea: identification of an mRNA element of Methanococcus jannaschii probably directing selenocysteine insertionQ34064419
The structure and mechanism of iron-hydrogenases.Q34198816
Stereochemical criteria for polypeptide and protein chain conformations. II. Allowed conformations for a pair of peptide unitsQ34356408
Carboxy-terminal processing of the large subunit of [NiFe] hydrogenasesQ34357726
HupUV proteins of Rhodobacter capsulatus can bind H2: evidence from the H-D exchange reactionQ35618739
Analysis and comparison of nucleotide sequences encoding the genes for [NiFe] and [NiFeSe] hydrogenases from Desulfovibrio gigas and Desulfovibrio baculatusQ36177811
Selenium biochemistryQ37856267
Current approaches to macromolecular crystallizationQ37919350
The three classes of hydrogenases from sulfate-reducing bacteria of the genus Desulfovibrio.Q39584913
HydrogenaseQ40260674
Nickel hydrogenases: in search of the active siteQ40557814
Redox properties and activity studies on a nickel-containing hydrogenase isolated from a halophilic sulfate reducer Desulfovibrio salexigensQ43018686
Nickel-[iron-sulfur]-selenium-containing hydrogenases from Desulfovibrio baculatus (DSM 1743). Redox centers and catalytic properties.Q52489982
Improved Fourier coefficients for maps using phases from partial structures with errorsQ56877556
X-ray Absorption Spectroscopy of the Molybdenum Site ofEscherichia coliFormate DehydrogenaseQ57610382
Biological activition of hydrogenQ59079237
Characterization of Representative Enzymes from a Sulfate Reducing Bacterium Implicated in the Corrosion of SteelQ59287395
The iron-sulfur centers of the soluble [NiFeSe] hydrogenase, from Desulfovibrio baculatus (DSM 1743). EPR and Mössbauer characterizationQ68459358
Effect of 17O2 and 13CO on EPR spectra of nickel in hydrogenase from Chromatium vinosumQ68491094
Purification and properties of the soluble hydrogenase from Desulfovibrio desulfuricans (strain Norway 4)Q72405656
P433issue5
P921main subjectcrystal structureQ895901
P304page(s)557-566
P577publication date1999-05-01
P1433published inStructureQ15709970
P1476titleThe crystal structure of a reduced [NiFeSe] hydrogenase provides an image of the activated catalytic center
P478volume7

Reverse relations

cites work (P2860)
Q45714613(NEt(4))(2)[Fe(CN)(2)(CO)('S(3)')]: an iron thiolate complex modeling the [Fe(CN)(2)(CO)(S-Cys)(2)] site of [NiFe] hydrogenase centers
Q44701420A glutamate is the essential proton transfer gate during the catalytic cycle of the [NiFe] hydrogenase
Q33733148A model for the CO-inhibited form of [NiFe] hydrogenase: synthesis of CO3Fe(micro-StBu)3Ni{SC6H3-2,6-(mesityl)2} and reversible CO addition at the Ni site
Q46808421A single-crystal ENDOR and density functional theory study of the oxidized states of the [NiFe] hydrogenase from Desulfovibrio vulgaris Miyazaki F.
Q57905489A theoretical study of spin states in Ni-S4 complexes and models of the [NiFe] hydrogenase active site
Q57477039An extracellular [NiFe] hydrogenase mediating iron corrosion is encoded in a genetically unstable genomic island in Methanococcus maripaludis
Q46898314An improved purification procedure for the soluble [NiFe]-hydrogenase of Ralstonia eutropha: new insights into its (in)stability and spectroscopic properties
Q45196322An orientation-selected ENDOR and HYSCORE study of the Ni-C active state of Desulfovibrio vulgaris Miyazaki F hydrogenase
Q34236840Analyses of the large subunit histidine-rich motif expose an alternative proton transfer pathway in [NiFe] hydrogenases
Q57383238Artificial photosynthesis – solar fuels: current status and future prospects
Q34144832Better than platinum? Fuel cells energized by enzymes
Q56427201Bio-Inspired Iron and Nickel Complexes
Q30374853Biomimetic chemistry of iron, nickel, molybdenum, and tungsten in sulfur-ligated protein sites.
Q41025386Carbon nitride-TiO2 hybrid modified with hydrogenase for visible light driven hydrogen production
Q42598122Characterization of a HoxEFUYH type of [NiFe] hydrogenase from Allochromatium vinosum and some EPR and IR properties of the hydrogenase module.
Q79327211Characterization of a cyanobacterial-like uptake [NiFe] hydrogenase: EPR and FTIR spectroscopic studies of the enzyme from Acidithiobacillus ferrooxidans
Q30357363Comparative genomic analyses of the cyanobacterium, Lyngbya aestuarii BL J, a powerful hydrogen producer.
Q34558515Complete genome sequence of Desulfomicrobium baculatum type strain (X)
Q58009708Computational study of the electronic structure and magnetic properties of the Ni–C state in [NiFe] hydrogenases including the second coordination sphere
Q92504742Crystal structure of NiFe(CO)5[tris(pyridyl-meth-yl)aza-phosphatrane]: a synthetic mimic of the NiFe hydrogenase active site incorporating a pendant pyridine base
Q35131328Crystallization and preliminary X-ray diffraction analysis of membrane-bound respiratory [NiFe] hydrogenase from Hydrogenovibrio marinus
Q27676784De novo modeling of the F 420 -reducing [NiFe]-hydrogenase from a methanogenic archaeon by cryo-electron microscopy
Q59939353Density Functional Calculations on Protonation of the [FeFe]-Hydrogenase Model Complex Fe2(μ-pdt)(CO)4(PMe3)2 and Subsequent Isomerization Pathways
Q28299957Density functional study of the catalytic cycle of nickel-iron [NiFe] hydrogenases and the involvement of high-spin nickel(II)
Q47769605Discovery of two novel radical S-adenosylmethionine proteins required for the assembly of an active [Fe] hydrogenase
Q39392361Dual organism design cycle reveals small subunit substitutions that improve [NiFe] hydrogenase hydrogen evolution
Q52629588Electrocatalytic proton reduction by a model for [NiFeSe] hydrogenases.
Q43182421Electrocatalytic reduction of protons to hydrogen by a water-compatible cobalt polypyridyl platform
Q26767154Electrochemical insights into the mechanism of NiFe membrane-bound hydrogenases
Q37249412Enzymatic activity mastered by altering metal coordination spheres.
Q37848681Evolution in the understanding of [Fe]-hydrogenase.
Q81786324FTIR spectroelectrochemical characterization of the Ni-Fe-Se hydrogenase from Desulfovibrio vulgaris Hildenborough
Q44920007FTIR spectroelectrochemical study of the activation and inactivation processes of [NiFe] hydrogenases: effects of solvent isotope replacement and site-directed mutagenesis.
Q93190341From protein engineering to artificial enzymes - biological and biomimetic approaches towards sustainable hydrogen production
Q39741310Functional analysis by site-directed mutagenesis of the NAD(+)-reducing hydrogenase from Ralstonia eutropha.
Q21263103Genome sequence of Desulfitobacterium hafniense DCB-2, a Gram-positive anaerobe capable of dehalogenation and metal reduction
Q36756517Genomic and metagenomic surveys of hydrogenase distribution indicate H2 is a widely utilised energy source for microbial growth and survival
Q38043422Group-10 metal complexes of biological molecules and related ligands: structural and functional properties
Q53840996H2 and O2 activation--a remarkable insight into hydrogenase.
Q46371571H2 evolution by a cobalt selenolate electrocatalyst and related mechanistic studies
Q53594770How are the ready and unready states of nickel-iron hydrogenase activated by H2? A density functional theory study.
Q42871127How light-harvesting semiconductors can alter the bias of reversible electrocatalysts in favor of H2 production and CO2 reduction
Q61429851Hydrogen metabolism in Desulfovibrio desulfuricans strain New Jersey (NCIMB 8313)—comparative study with D. vulgaris and D. gigas species
Q57905336Hydrogenases and oxygen
Q47721144Hydrogenases in Desulfovibrio vulgaris Hildenborough: structural and physiologic characterisation of the membrane-bound [NiFeSe] hydrogenase.
Q37223993Hydrogenesis in hyperthermophilic microorganisms: implications for biofuels.
Q38587258Insights into the catalytic mechanism of synthetic glutathione peroxidase mimetics
Q42952913Interaction of the active site of the Ni-Fe-Se hydrogenase from Desulfovibrio vulgaris Hildenborough with carbon monoxide and oxygen inhibitors
Q37714462Intermediates in the catalytic cycle of [NiFe] hydrogenase: functional spectroscopy of the active site
Q39526370Interplay between the specific chaperone-like proteins HybG and HypC in maturation of hydrogenases 1, 2, and 3 from Escherichia coli
Q34086553Learning from hydrogenases: location of a proton pump and of a second FMN in bovine NADH--ubiquinone oxidoreductase (Complex I).
Q28661095Metabolically engineered bacteria for producing hydrogen via fermentation
Q35597049Metal-metal bonds in biology
Q37727718Metalloproteins containing cytochrome, iron-sulfur, or copper redox centers
Q37808629Metalloproteomics, metalloproteomes, and the annotation of metalloproteins
Q37138317Modelling NiFe hydrogenases: nickel-based electrocatalysts for hydrogen production
Q34234510Modulation of the electronic structure and the Ni-Fe distance in heterobimetallic models for the active site in [NiFe]hydrogenase.
Q36511970Molecular evolution of gas cavity in [NiFeSe] hydrogenases resurrected in silico
Q35758560Nature of hydrogen interactions with Ni(II) complexes containing cyclic phosphine ligands with pendant nitrogen bases
Q35164022Nickel uptake and utilization by microorganisms
Q60034149Nickel-Iron-Selenium Hydrogenases - An Overview
Q34606444Nickel-based Enzyme Systems
Q53297756Novel reactions of homodinuclear Ni2 complexes [Ni(RNPyS4)]2 with Fe3(CO)12 to give heterotrinuclear NiFe2 and mononuclear Fe complexes relevant to [NiFe]- and [Fe]-hydrogenases.
Q41816720Overexpression, isolation, and spectroscopic characterization of the bidirectional [NiFe] hydrogenase from Synechocystis sp. PCC 6803.
Q64955725Oxygen uptake in complexes related to [NiFeS]- and [NiFeSe]-hydrogenase active sites.
Q54857619Photocatalytic Hydrogen Production using Polymeric Carbon Nitride with a Hydrogenase and a Bioinspired Synthetic Ni Catalyst.
Q41866485Photocatalytic hydrogen evolution with a hydrogenase in a mediator-free system under high levels of oxygen
Q35835829Photocatalytic hydrogen production using polymeric carbon nitride with a hydrogenase and a bioinspired synthetic Ni catalyst
Q41768695Photoelectrocatalytic H2 evolution in water with molecular catalysts immobilised on p-Si via a stabilising mesoporous TiO2 interlayer.
Q37169173Photoelectrochemical H2 Evolution with a Hydrogenase Immobilized on a TiO2 -Protected Silicon Electrode
Q37169525Photoelectrochemical H2 Evolution with a Hydrogenase Immobilized on a TiO2-Protected Silicon Electrode
Q80543739Preparative and structural studies on iron(II)-thiolate cyanocarbonyls: relevance to the [NiFe]/[Fe]-hydrogenases
Q58046832Preventing metal-mediated oxidative DNA damage with selenium compounds
Q27654190Probing the role of the proximal heme ligand in cytochrome P450cam by recombinant incorporation of selenocysteine
Q28749527Purification, crystallization and preliminary crystallographic analysis of the [NiFeSe] hydrogenase from Desulfovibrio vulgaris Hildenborough
Q37777140Quantum Chemical Studies of Proton-Coupled Electron Transfer in Metalloenzymes
Q34662137Quantum chemical calculations of [NiFe] hydrogenase
Q57654184Reduction of Unusual Iron-Sulfur Clusters in the H2-sensing Regulatory Ni-Fe Hydrogenase fromRalstonia eutrophaH16
Q46221294Refinement of the nickel site structure in Desulfovibrio gigas hydrogenase using range-extended EXAFS spectroscopy
Q59618801SYNERGY BETWEEN THEORY AND EXPERIMENT AS APPLIED TO H/D EXCHANGE ACTIVITY ASSAYS IN [Fe]H2ase ACTIVE SITE MODELS
Q58076433Selenium at the redox interface of the genome, metabolome and exposome
Q34081446Selenium in biology: facts and medical perspectives
Q41767935Selenium is involved in regulation of periplasmic hydrogenase gene expression in Desulfovibrio vulgaris Hildenborough.
Q88194122Selenium versus sulfur: Reversibility of chemical reactions and resistance to permanent oxidation in proteins and nucleic acids
Q37703513Selenoproteins-What unique properties can arise with selenocysteine in place of cysteine?
Q50048896Site preferences in hetero-metallic [Fe9-xNix] clusters: a combined crystallographic, spectroscopic and theoretical analysis.
Q37737809Solar H2 evolution in water with modified diketopyrrolopyrrole dyes immobilised on molecular Co and Ni catalyst-TiO2 hybrids
Q37269977Spectroscopic and density functional theory studies of the blue-copper site in M121SeM and C112SeC azurin: Cu-Se versus Cu-S bonding
Q42554806Spectroscopic insights into the oxygen-tolerant membrane-associated [NiFe] hydrogenase of Ralstonia eutropha H16
Q43622644Structural and gene expression analyses of uptake hydrogenases and other proteins involved in nitrogenase protection in Frankia.
Q81601297Structural differences between the ready and unready oxidized states of [NiFe] hydrogenases
Q83352758Structural features of [NiFeSe] and [NiFe] hydrogenases determining their different properties: a computational approach
Q27685146Structural foundations for the O2 resistance of Desulfomicrobium baculatum [NiFeSe]-hydrogenase
Q33801803Structure and electron transfer mechanism of pyruvate:ferredoxin oxidoreductase.
Q33801799Structure and mechanism of iron-only hydrogenases
Q89542660Structure, function, and biosynthesis of nickel-dependent enzymes
Q28254725Structure-function relationships of anaerobic gas-processing metalloenzymes
Q38074042Studies on hydrogenase
Q96816055Studying O2 pathways in [NiFe]- and [NiFeSe]-hydrogenases
Q59618734Sulfoxygenation of Active Site Models of [NiFe] and [FeFe] Hydrogenases - A Commentary on Possible Chemical Models of Hydrogenase Enzyme Oxygen Sensitivity
Q28646716Synthetic Active Site Model of the [NiFeSe] Hydrogenase
Q27663713The Crystal Structure of the [NiFe] Hydrogenase from the Photosynthetic Bacterium Allochromatium vinosum: Characterization of the Oxidized Enzyme (Ni-A State)
Q80312582The activation of the [NiFe]-hydrogenase from Allochromatium vinosum. An infrared spectro-electrochemical study
Q57483432The active site and catalytic mechanism of NiFe hydrogenases
Q45041011The auxiliary protein HypX provides oxygen tolerance to the soluble [NiFe]-hydrogenase of ralstonia eutropha H16 by way of a cyanide ligand to nickel
Q59618826The bio-organometallic chemistry of active site iron in hydrogenases
Q27651339The crystal structure of [Fe]-hydrogenase reveals the geometry of the active site
Q45069127The direct role of selenocysteine in [NiFeSe] hydrogenase maturation and catalysis.
Q33978717The membrane-bound electron transport system of Methanosarcina species
Q34915335The organometallic active site of [Fe]hydrogenase: models and entatic states
Q37352679The roles of the first and second coordination spheres in the design of molecular catalysts for H2 production and oxidation
Q41851413The soluble NAD+-Reducing [NiFe]-hydrogenase from Ralstonia eutropha H16 consists of six subunits and can be specifically activated by NADPH.
Q80136335The soluble [NiFe]-hydrogenase from Ralstonia eutropha contains four cyanides in its active site, one of which is responsible for the insensitivity towards oxygen
Q58009684Theoretical Spectroscopy of the NiIIIntermediate States in the Catalytic Cycle and the Activation of [NiFe] Hydrogenases
Q44602336Thermodynamic Hydride Donor Abilities of [HW(CO)4L]-Complexes (L = PPh3, P(OMe)3, CO) and Their Reactions with [C5Me5Re(PMe3)(NO)(CO)]+
Q36693932Thiolate-bridged dinuclear iron(tris-carbonyl)-nickel complexes relevant to the active site of [NiFe] hydrogenase
Q34169618Trends in selenium biochemistry.
Q36370804Two distinct modes of metal ion binding in the nuclease active site of a viral DNA-packaging terminase: insight into the two-metal-ion catalytic mechanism
Q33996746Two membrane-associated NiFeS-carbon monoxide dehydrogenases from the anaerobic carbon-monoxide-utilizing eubacterium Carboxydothermus hydrogenoformans
Q74663008Two-dimensional materials based on trans-[FeII(CN)4(CO)2]2- building blocks; first structural evidence for a hydrated metal carbonyl ligation
Q33812355Vibrational analysis of the model complex (mu-edt)[Fe(CO)(3)](2) and comparison to iron-only hydrogenase: the activation scale of hydrogenase model systems
Q47426316Why is a proton transformed into a hydride by [NiFe] hydrogenases? An intrinsic reactivity analysis based on conceptual DFT.
Q90578394X-ray Crystallography and Vibrational Spectroscopy Reveal the Key Determinants of Biocatalytic Dihydrogen Cycling by [NiFe] Hydrogenases
Q27678099X-ray crystallographic and computational studies of the O2-tolerant [NiFe]-hydrogenase 1 from Escherichia coli
Q27698514[NiFe]-hydrogenases revisited: nickel-carboxamido bond formation in a variant with accrued O2-tolerance and a tentative re-interpretation of Ni-SI states

Search more.