Classification and phylogeny of hydrogenases

FEMS Microbiology Reviews

Volumn 25, Issue 4, 2001, Pages 455-501

  Vignais, Paulette M ^a   Billoud, Bernard ^b   Meyer, Jacques ^a  

^a CEA GRENOBLE   (France)

^b SORBONNE UNIVERSITÉ   (France)

Author keywords

Fe hydrogenase; NiFe hydrogenase; Complex I; Ferredoxin; Phylogeny; Respiratory chain

Indexed keywords

BACTERIAL ENZYME; FERREDOXIN; HYDROGENASE; IRON; NICKEL; SIGNAL PEPTIDE;

AMINO ACID SEQUENCE; ARCHAEBACTERIUM; BACTERIUM; BIODIVERSITY; ENERGY METABOLISM; ENZYME ACTIVE SITE; ENZYME LOCALIZATION; ENZYME STRUCTURE; EUKARYOTE; EVOLUTION; GENETIC PROCEDURES; NOMENCLATURE; NONHUMAN; NUCLEOTIDE SEQUENCE; OXIDATION REDUCTION REACTION; PHYLOGENY; RESPIRATORY CHAIN; REVIEW; UNINDEXED SEQUENCE;

AMINO ACID SEQUENCE; BACTERIA; BINDING SITES; EVOLUTION, MOLECULAR; HYDROGENASE; IRON; IRON-SULFUR PROTEINS; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; NICKEL; PHYLOGENY; PROTEIN SUBUNITS;

EID: 0034886919     PISSN: 01686445     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0168-6445(01)00063-8     Document Type: Review

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95. The hydrogenase structural operon in Rhodobacter capsulatus contains a third gene, hupM, necessary for the formation of a physiologically competent hydrogenase
96. Organization of the genes necessary for hydrogenase expression in Rhodobacter capsulatus. Sequence analysis and identification of two hyp regulatory mutants
97. Clustering of genes necessary for hydrogen oxidation in Rhodobacter capsulatus
98. Identification and sequence analysis of the hupR1 gene, which encodes a response regulator of the NtrC family required for hydrogenase expression in Rhodobacter capsulatus
99. Sequence analysis and interposon mutagenesis of the hupT gene, which encodes a sensor protein involved in repression of hydrogenase synthesis in Rhodobacter capsulatus
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102. 2: Evidence from the H-D exchange reaction
103. 2 activation of hupSLC transcription
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111. 2-uptake gene cluster from Rhizobium leguminosarum bv. viciae containing a rubredoxin-like gene and four additional open reading frames
112. Molecular analysis of a microaerobically induced operon required for hydrogenase synthesis in Rhizobium leguminosarum biovar viciae
113. HupK, a hydrogenase-ancillary protein from Rhizobium leguminosarum, shares structural motifs with the large subunit of NiFe hydrogenases and could be a scaffolding protein for hydrogenase metal cofactor assembly
114. Purification of Rhizobium leguminosarum HypB, a nickel-binding protein required for hydrogenase synthesis
115. The hypBFCDE operon from Rhizobium leguminosarum biovar viciae is expressed from an Fnr-type promoter that escapes mutagenesis of the fnrN gene
116. Hydrogenase genes from Rhizobium leguminosarum bv. viciae are controlled by the nitrogen fixation regulatory protein NifA
117. 10-formyltetrahydrofolate-dependent enzyme family and is required for nickel-dependent hydrogenase processing and activity
118. Rhizobium leguminosarum bv. viciae hypA gene is specifically expressed in pea (Pisum sativum) bacteroids and required for hydrogenase activity and processing
119. Nucleotide sequence of the genetic loci encoding subunits of Bradyrhizobium japonicum uptake hydrogenase
120. Nucleotide sequence analysis of four genes, hupC, hupD, hupF and hupG, downstream of the hydrogenase structural genes in Bradyrhizobium japonicum
121. Identification of a potential transcriptional regulator of hydrogenase activity in free-living Bradyrhizobium japonicum strains
122. Sequences and characterization of hupU and hupV genes of Bradyrhizobium japonicum encoding a possible nickel-sensing complex involved in hydrogenase expression
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129. The HypB protein from Bradyrhizobium japonicum can store nickel and is required for the nickel-dependent transcriptional regulation of hydrogenase
130. The sequences of hypF, hypC and hypD complete the hyp gene cluster required for hydrogenase activity in Bradyrhizobium japonicum
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147. hoxX (hypX) is a functional member of the Alcaligenes eutrophus hyp gene cluster
148. 2-activating subunit, HoxH, directs maturation of the NAD-reducing hydrogenase in Alcaligenes eutrophus
149. 2-activating site of the NAD-reducing hydrogenase from Alcaligenes eutrophus
150. Transcriptional regulation of Alcaligenes eutrophus hydrogenase genes
151. Positive transcriptional feedback controls hydrogenase expression in Alcaligenes eutrophus H16
152. 2 sensor of Ralstonia eutropha is a member of the subclass of regulatory [NiFe] hydrogenases
153. Cloning, sequencing and characterization of the [NiFe] hydrogenase-encoding structural genes (hoxK and hoxG) from Azotobacter vinelandii
154. Nucleotide sequences and genetic analysis of hydrogen oxidation (hox) genes in Azotobacter vinelandii
155. Two open reading frames (ORFs) identified near the hydrogenase structural genes in Azotobacter vinelandii, the first ORF may encode for a polypeptide similar to rubredoxins
156. Identification of six open reading frames from a region of the Azotobacter vinelandii genome likely involved in dihydrogen metabolism
157. The hoxZ gene of the Azotobacter vinelandii hydrogenase operon is required for activation of hydrogenase
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163. 2 oxidation capability
164. 2-uptake hydrogenase of Azotobacter chroococcum
165. Characterization of two genes (hupD and hupE) required for hydrogenase activity in Azotobacter chroococcum
166. The Azotobacter chroococcum hydrogenase gene cluster: Sequences and genetic analysis of four accessory genes, hupA, hupB, hupY and hupC
167. Sequences, organization and analysis of the hupZMNOQRTV genes from the Azotobacter chroococcum hydrogenase gene cluster
168. Initial cloning and sequencing of hydHG, an operon homologous to ntrB and regulating the labile hydrogenase activity in Escherichia coli K-12
169. Cloning and sequencing of a putative Escherichia coli [NiFe] hydrogenase-1 operon containing six open reading frames
170. Mutational analysis and characterization of the Escherichia coli hya operon, which encodes [NiFe] hydrogenase 1
171. Nucleotide sequence analysis and expression control of hydA in Escherichia coli
172. Molecular characterisation of an operon (hyp) necessary for the activity of the three hydrogenase isoenzymes in Escherichia coli
173. The hyp operon gene products are required for the maturation of catalytically active hydrogenase isoenzymes in Escherichia coli
174. Cloning, sequencing, and mutational analysis of the hyb operon encoding Escherichia coli hydrogenase 2
175. Nucleotide sequence and expression of an operon in Escherichia coli coding for formate hydrogenlyase components
176. Mutational analysis of the operon (hyc) determining hydrogenase 3 formation in Escherichia coli
177. The product of the hypB gene, which is required for nickel incorporation into hydrogenases, is a novel guanine nucleotide-binding protein
178. GTP hydrolysis by HypB is essential for nickel insertion into hydrogenases of Escherichia coli
179. Maturation of the large subunit (HYCE) of Escherichia coli hydrogenase 3 requires nickel incorporation followed by C-terminal processing at Arg537
180. Characterisation of a protease from Escherichia coli involved in hydrogenase maturation
181. Analysis of the hydA locus of Escherichia coli: Two genes (hydN and hypF) involved in formate and hydrogen metabolism
182. Nickel incorporation into hydrogenase 3 from Escherichia coli requires the precursor form of the large subunit
183. Reassignment of the gene encoding the Escherichia coli hydrogenase 2 small subunit. Identification of a soluble precursor of the small subunit in a hypB mutant
184. Dissection of the maturation reactions of the [NiFe] hydrogenase 3 from Escherichia coli taking place after nickel incorporation
185. Analysis of the HypC-HycE complex, a key intermediate in the assembly of the metal center of the Escherichia coli hydrogenase 3
186. Crystal structure of the hydrogenase maturating endopeptidase HYBD from Escherichia coli
187. Analysis of the cleavage site specificity of the endopeptidase involved in the maturation of the large subunit of hydrogenase 3 from Escherichia coli
188. Nickel serves as a substrate recognition motif for the endopeptidase involved in hydrogenase maturation
189. Cloning and sequences of the structural (hupSLC) and accessory (hupDHI) genes for hydrogenase biosynthesis in Thiocapsa roseopersicina
190. Unusual organization of the genes coding for HydSL, the stable [NiFe] hydrogenase in the photosynthetic bacterium Thiocapsa roseopersicina BBS
191. Cloning and sequencing of the membrane-bound hydrogenase-encoding genes (hupS and hupL) from Pseudomonas hydrogenovora
192. Expression of genes encoding membrane-bound hydrogenase in Pseudomonas hydrogenovora under autotrophic condition is dependent on two different promoters
193. The hupC gene product is a component of the electron transport system for hydrogen oxidation in Pseudomonas hydrogenovora
194. Carbamoylphosphate requirement for synthesis of the active center of [NiFe]-hydrogenases
195. Met formyltransferase: Comparison with glycinamide ribonucleotide formyltransferase
196. Generation of active [NiFe] hydrogenase in vitro from a nickel-free precursor form
197. Interaction of the hydrogenase accessory protein HypC with HycE, the large subunit of Escherichia coli hydrogenase 3 during enzyme maturation
198. A novel very small subunit of a selenium containing [nickel-iron] hydrogenase of Methanococcus voltae is postranslationally processed by cleavage at a defined position
199. Nickel incorporation into hydrogenases
200. Requirement of nickel metabolism proteins HypA and HypB for full activity of both hydrogenase and urease in Helicobacter pylori
201. Metallocenter assembly in nickel-containing enzymes
202. Nickel transport systems in microorganisms
203. Evidence for lateral gene transfer between Archaea and Bacteria from genome sequence of Thermotoga maritima
204. The hyperthermophilic bacterium, Thermotoga maritima, contains an unusually complex iron-hydrogenase: Amino acid sequence analyses versus biochemical characterization
205. Carboxy-terminal processing of the large subunit of [Fe] hydrogenase from Desulfovibrio desulfuricans ATCC 7757
206. Nitrogenase metalloclusters: Structures, organization, and synthesis
207. Maturation of cellular Fe-S proteins: An essential function of mitochondria
208. Distinct iron-sulfur assembly complexes exist in the cytosol and mitochondria of human cells
209. The complete genome of the hyperthermophilic bacterium Aquifex aeolicus
210. Characterisation of the urease gene cluster in Bordetella bronchiseptica
211. Cloning and sequencing the genes encoding uptake-hydrogenase subunits of Rhodocyclus gelatinosus
212. A novel and ubiquitous system for membrane targeting and secretion of cofactor-containing proteins
213. Overlapping functions of components of a bacterial Sec-independent protein export pathways
214. Membrane targeting and translocation of bacterial hydrogenases
215. The Tat protein export pathway
216. A universal system for the transport of redox proteins: Early roots and latest developments
217. An essential component of a novel bacterial protein export system with homologues in plastids and mitochondria
218. Potential receptor function of three homologous components, TatA, TatB and TatE, of the twin-arginine signal sequence-dependent metalloenzyme translocation pathway in Escherichia coli
219. Co-translocation of a periplasmic enzyme complex by a hitchhiker mechanism through the bacterial Tat pathway
220. The role of the twin-arginine motif in the signal peptide encoded by the hydA gene of the hydrogenase from Wolinella succinogenes
221. Ralstonia eutropha TF93 is blocked in Tat-mediated protein export
222. The [Ni-Fe] hydrogenase from the thermophilic bacterium Acetomicrobium flavidum
223. Nucleotide sequences of membrane-bound hydrogenase gene in Alcaligenes hydrogenophilus
224. Programmed DNA rearrangement of a cyanobacterial hupL gene in heterocysts
225. Transcriptional and mutational analysis of the uptake hydrogenase of the filamentous cyanobacterium Anabaena variabilis ATCC 29413
226. Molecular biological analysis of a bidirectional hydrogenase from cyanobacteria
227. The complete genome sequence of the hyperthermophilic, sulphate-reducing archaeon Archaeoglobus fulgidus
228. The genome sequence of the food-borne pathogen Campylobacter jejuni reveals hypervariable sequences
229. Random transposition by Tn916 in Desulfitobacterium dehalogenans allows for isolation and characterization of halorespiration mutants
230. Analysis and comparison of nucleotide sequences encoding the genes for [NiFe] and [NiFeSe] hydrogenases from Desulfovibrio gigas and Desulfovibrio baculatus
231. Cloning and sequencing of the genes encoding the large and small subunits of the periplasmic (NiFeSe) hydrogenase of Desulfovibrio baculatus
232. The primary structure of the beta subunit of Desulfovibrio desulfuricans (ATCC 27774) [NiFe] hydrogenase
233. Cloning and sequencing of the locus encoding the large and small subunit genes of the periplasmic [NiFe]hydrogenase from Desulfovibrio fructosovorans
234. Cloning, characterization, and sequencing of the genes encoding the large and small subunits of the periplasmic [NiFe]hydrogenase of Desulfovibrio gigas
235. Cloning and sequencing of a [NiFe] hydrogenase operon from Desulfovibrio vulgaris Miyazaki F
236. The complete genome sequence of Escherichia coli K-12
237. A 12-cistron Escherichia coli operon (hyf) encoding a putative proton-translocating formate hydrogenlyase system
238. The complete genome sequence of the gastric pathogen Helicobacter pylori
239. Genomic-sequence comparison of two unrelated isolates of the human gastric pathogen Helicobacter pylori
240. Cloning, sequence determination, and expression of the genes encoding the subunits of the nickel-containing 8-hydroxy-5-deazaflavin reducing hydrogenase from Methanobacterium thermoautotrophicum delta H
241. Complete genome sequence of Methanobacterium thermoautotrophicum delta H: Functional analysis and comparative genomics
242. A hydrogenase-linked gene in Methanobacterium thermoautotrophicum strain delta H encodes a polyferredoxin
243. Methanobacterium thermoautotrophicum encodes two multisubunit membrane-bound [NiFe]hydrogenases. Transcription of the operons and sequence analysis of the deduced proteins
244. Complete genome sequence of the methanogenic archaeon, Methanococcus jannaschii
245. 420-non-reducing types
246. The [NiFe] hydrogenases of Methanococcus voltae. Genes, enzymes and regulation
247. 2-dependent heterodisulfide reduction in Methanococcus voltae
248. 420-reducing hydrogenase from Methanosarcina barkeri
249. 420-reducing hydrogenases in Methanosarcina barkeri
250. Biochemical characterization of the 8-hydroxy-5-deazaflavin-reactive hydrogenase from Methanosarcina barkeri Fusaro
251. Analysis of the vhoGAC and vhtGAC operons from Methanosarcina mazei strain Goe1, both encoding a membrane-bound hydrogenase and a cytochrome b
252. Conservation of hydrogenase and polyferredoxin structures in the hyperthermophilic archaebacterium Methanothermus fervidus
253. Transcriptional regulation of Nostoc uptake hydrogenase
254. Hydrogen uptake in Nostoc sp. strain PCC 73102. Cloning and characterization of a hupSL homolog
255. 2 uptake membrane-bound NiFe-hydrogenase from the carboxidotrophic bacterium Oligotropha carboxidovorans
256. Purification and characterization of a membrane-bound hydrogenase from the hyperthermophilic archaeon Pyrococcus furiosus
257. Enzymes of hydrogen metabolism in Pyrococcus furiosus
258. Characterization of the locus encoding the [Ni-Fe] sulfhydrogenase from the archaeon Pyrococcus furiosus: Evidence for a relationship to bacterial sulfite reductases
259. Characterization of hydrogenase II from the hyperthermophilic archaeon Pyrococcus furiosus and assessment of its role in sulfur reduction
260. Complete sequence and gene organization of the genome of a hyper-thermophilic archaebacterium, Pyrococcus horikoshii
261. Temporal and spatial co-expression of hydrogenase and nitrogenase genes from Rhizobium leguminosarum bv. viciae in pea (Pisum sativum L.) root nodules
262. Genes encoding the NAD-reducing hydrogenase of Rhodococcus opacus MR11
263. Location, catalytic activity, and subunit composition of NAD-reducing hydrogenases of some Alcaligenes strains and Rhodococcus opacus MR22
264. Characterization of the region encoding the CO-induced hydrogenase of Rhodospirillum rubrum
265. Characterization of the CO-induced, CO-tolerant hydrogenase from Rhodospirillum rubrum and the gene encoding the large subunit of the enzyme
266. Cloning, molecular analysis and insertional mutagenesis of the bidirectional hydrogenase genes from the cyanobacterium Anacystis nidulans
267. Unusual gene arrangement of the bidirectional hydrogenase and functional analysis of its diaphorase subunit HoxU in respiration of the unicellular cyanobacterium Anacystis nidulans
268. Sequence analysis of an operon of a NAD(P)-reducing nickel hydrogenase from the cyanobacterium Synechocystis sp. PCC 6803 gives additional evidence for direct coupling of the enzyme to NAD(P)H-dehydrogenase (complex I)
269. Sequence analysis of the genome of the unicellular cyanobacterium Synechocystis sp. strain PCC6803. II. Sequence determination of the entire genome and assignment of potential protein-coding regions
270. Biochemical and molecular characterization of the [NiFe] hydrogenase from the hyperthermophilic archaeon, Thermococcus litoralis
271. The quinone-reactive Ni/Fe-hydrogenase of Wolinella succinogenes
272. Primary structure of hydrogenase I from Clostridium pasteurianum
273. Characterization of the gene encoding the [Fe]-hydrogenase from Megasphaera elsdenii
274. Characterization of an operon encoding an NADP-reducing hydrogenase in Desulfovibrio fructosovorans
275. Iron hydrogenases and the evolution of anaerobic eukaryotes
276. Identification and characterization of [Fe]-hydrogenases in the hydrogenosome of Trichomonas vaginalis
277. Implications of protein import on the origin of hydrogenosomes
278. Nucleotide sequence of the gene encoding the hydrogenase from Desulfovibrio vulgaris (Hildenborough)
279. Hydrogenase: A hydrogen-metabolizing enzyme. What do the crystal structures tell us about its mode of action?
280. Gas access to the active site of Ni-Fe hydrogenases probed by X-ray crystallography and molecular dynamics
281. Hydrogenase of the hyperthermophile Pyrococcus furiosus is an elemental sulfur reductase or sulfhydrogenase: Evidence for a sulfur-reducing hydrogenase ancestor
282. PROSITE: Recent developments
283. CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
284. Electron transport chain and energy transduction in Paracoccus denitrificans under autotrophic growth conditions
285. 2 oxidation by chromatophores from Rhodopseudomonas capsulata
286. Hydrogen oxidation by membranes from autotrophically grown Alcaligenes eutrophus H16: Role of the cyanide-resistant pathway in energy transduction
287. Two membrane anchors of Wolinella succinogenes hydrogenase and their function in fumarate and polysulfide respiration
288. 2:heterodisulfide oxidoreductase from Methanosarcina mazei Gö1: Identification of two proton-translocating segments
289. Expression of uptake hydrogenase and molybdenum nitrogenase in Rhodobacter capsulatus is coregulated by the RegB-RegA two-component regulatory system
290. Hydrogen uptake in Nostoc sp. strain PCC73102 effects of nickel, hydrogen, carbon and nitrogen
291. 2-uptake and nitrogenase activities in the cyanobacterium Anabaena variabilis ATCC 29413: Effects of hydrogen and organic substrate
292. Reactivity of [Fe] and [Ni-Fe-Se] hydrogenases with their oxido-reduction partner, the tetraheme cytochrome c3
293. Metal-reducing microorganisms
294. The hmc operon of Desulfovibrio vulgaris subsp. vulgaris Hildenborough encodes a potential transmembrane redox protein complex
295. 553 complex combining transverse relaxation-optimized spectroscopy experiments and soft docking calculations
296. A sequential electron transfer from hydrogenases to cytochromes in sulfate-reducing bacteria
297. Electron transfer between hydrogenases and mono- and multiheme cytochromes in Desulfovibrio ssp
298. The primary and three-dimensional structures of a nine-haem cytochrome c from Desulfovibrio desulfuricans ATCC 27774 reveal a new member of the Hmc family
299. 3 mutants of Desulfovibrio desulfuricans
300. Deletion of the hmc operon of Desulfovibrio vulgaris subsp. vulgaris Hildenborough hampers hydrogen metabolism and low-redox-potential niche establishment
301. Characterization of the active site of a hydrogen sensor from Alcaligenes eutrophus
302. Novel reactions involved in energy conservation by methanogenic archaea
303. 2 dehydrogenase from Methanosarcina mazei is a redox-driven proton pump closely related to NADH dehydrogenase
304. Hydrogen production from pyruvate by enzymes purified from the hyperthermophilic archaeon, Pyrococcus furiosus: A key role for NADPH
305. Purification and properties of the soluble hydrogenase from Alcaligenes eutrophus H16
306. Localization of the reversible hydrogenase in cyanobacteria
307. 2-fixing cells
308. +-dependent hydrogenase activity in extracts from the cyanobacterium Anacystis nidulans
309. 2-uptake and evolution in the unicellular cyanobacterium Chroococcidiopsis thermalis CALU 758
310. The diaphorase subunit HoxU of the bidirectional hydrogenase as electron transferring protein in cyanobacterial respiration?
311. Hydrogenases in Nostoc sp. strain PCC 73102, a strain lacking a bidirectional enzyme
312. Diversity of cyanobacterial hydrogenases, a molecular approach
313. Evidence against a common use of the diaphorase subunits by the bidirectional hydrogenase and by the respiratory complex I in cyanobacteria
314. The bidirectional hydrogenase of Synechocystis sp. PCC 6803 works as an electron valve during photosynthesis
315. Generic assignments, strain histories and properties of pure cultures of cyanobacteria
316. Characterization and expression of the hydrogenase-encoding gene from Clostridium acetobutylicum P262
317. Molecular characterization and transcriptional analysis of the putative hydrogenase gene of Clostridium acetobutylicum ATCC 824
318. 2-evolving hydrogenase of Clostridium perfringens: Molecular characterization and expression of the gene
319. Molecular study and partial characterization of iron-only hydrogenase in Desulfovibrio fructosovorans
320. hyd γ, a gene from Desulfovibrio vulgaris (Hildenborough) encodes a polypeptide homologous to the periplasmic hydrogenase
321. Organization of the genes encoding [Fe] hydrogenase in Desulfovibrio vulgaris subsp. oxamicus Monticello
322. A hydrogenosome with a genome
323. The nucleotide sequence of Saccharomyces cerevisiae chromosome XIV and its evolutionary implications
324. The genome sequence of Drosophila melanogaster
325. Prenylated prelamin A interacts with Narf, a novel nuclear protein
326. Heterologous biosynthesis and characterization of the [2Fe-2S]-containing N-terminal domain of Clostridium pasteurianum hydrogenase
327. Structural similarities between the N-terminal domain of Clostridium pasteurianum hydrogenase and plant-type ferredoxins
328. Structure of a thioredoxin-like [2Fe-2S] ferredoxin from Aquifex aeolicus
329. Evidence for an [Fe]-type hydrogenase in the parasitic protozoan Trichomonas vaginalis
330. A [2Fe-2S] protein from the hyperthermophilic bacterium Aquifex aeolicus
331. Isolation and characteristics of flavodoxin from nitrogen-fixing Clostridium pasteurianum
332. Efficiency of ferredoxins and flavodoxins as mediators in systems for hydrogen evolution
333. Hydrogen evolution by a chloroplast-ferredoxin-hydrogenase system
334. Prolonged production of hydrogen gas by a chloroplast biocatalytic system
335. Probing the role of electrostatic forces in the interaction of Clostridium pasteurianum ferredoxin with its redox partners
336. Electron transfer properties of iron-sulfur proteins
337. Hydrogenosomes: Eukaryotic adaptations to anaerobic environments
338. Molecular analysis of the hydrogenosomal ferredoxin of the anaerobic protist Trichomonas vaginalis
339. A hydrogenosome with pyruvate formate-lyase: Anaerobic chytrid fungi use an alternative route for pyruvate catabolism
340. 2-fixing anaerobe Clostridium pasteurianum W5
341. Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
342. BLAST2 sequences, a new tool for comparing protein and nucleotide sequences
343. The neighbor-joining method: A new method for reconstructing phylogenetic trees
344. BIONJ: An improved version of the NJ algorithm based on a simple model of sequence data
345. WWW-Query: An on-line retrieval system for biological sequence banks
346. Confidence limits on phylogenies: An approach using the bootstrap
347. Database resources of the National Center for Biotechnology Information
348. GenBank
349. Phylogenetic classification and the universal tree
350. Interpreting the universal phylogenetic tree
351. Procaryotic complex I (NDH-1), an overview
352. The NADH:ubiquinone oxidoreductase (complex I) from Escherichia coli
353. The Complex I from Rhodobacter capsulatus
354. Immuno-purification of a dimeric subcomplex of the respiratory NADH-CoQ reductase of Rhodobacter capsulatus equivalent to the FP fraction of the mitochondrial complex I
355. Resolution of the membrane domain of bovine complex I into subcomplexes: Implications for the structural organization of the enzyme
356. +-translocating NADH-quinone oxidoreductase (NDH-1) of Paracoccus denitrificans. Studies on topology and stoichiometry of the peripheral subunits
357. Evidence for a quinone binding site close to the interface between NUOD and NUOB subunits of Complex I
358. Characterization of the putative 2x[4Fe-4S]-binding NQO9 subunit of the proton-translocating NADH-quinone oxidoreductase (NDH-1) of Paracoccus denitrificans
359. Purification and catalytic properties of Ech hydrogenase from Methanosarcina barkeri
360. Refined X-ray structures of the oxidized, at 1.3 Å, and reduced, at 1.17 Å, [2Fe-2S] ferredoxin from the cyanobacterium Anabaena PCC7119 show redox-linked conformational changes
361. Atomic resolution (0.94 Å) structure of Clostridium acidurici ferredoxin. Detailed geometry of [4Fe-4S] clusters in a protein
362. Toward a characterization of the connecting module of Complex I
363. 2-oxidizing subunit
364. 2:quinone oxidoreductase from Archaeoglobus fulgidus. Characterization of a membrane-bound multisubunit complex containing FAD and iron-sulfur clusters
365. The chimeric eukaryote: Origin of the nucleus from the karyomastigont in amitochondriate protists
366. The hydrogen hypothesis for the first eukaryote
367. 2-metabolism in the green alga Scenedesmus obliquus
368. Soluble hydrogenase of Anabaena cylindrica. Cloning and sequencing of a potential gene encoding the tritium exchange subunit
369. Possible evolutionary relationship between mammalian alanine:glyoxylate aminotransferase 1 and the 42-kD subunit of cyanobacterial soluble hydrogenase
370. 2-forming methylenetetrahydromethanopterin dehydrogenase (Hmd) and of HmdII and HmdIII in Methanothermobacter marburgensis
371. The hydH/G genes from Escherichia coli code for a zinc and lead responsive two-component regulatory system
372. Inhibition by iodoacetamide and acetylene of the H-D-exchange reaction catalyzed by Thiocapsa roseopersicina hydrogenase
373. Key role for sulfur in peptide metabolism and in regulation of three hydrogenases in the hyperthermophilic archaeon Pyrococcus furiosus
374. Chloroplast transit peptides from the green alga Chlamydomonas reinhardtii share features with both mitochondrial and higher plant chloroplast presequences
375. Old and new pathways of protein export in chloroplasts and bacteria
376. Discovery of hyperthermophilic microorganisms
377. RasMol: Biomolecular graphics for all
378. The phylogeny of proteobacteria: Relationships to other eubacterial phyla and eukaryotes
379. A phylogenetic analysis of Aquifex pyrophilus
380. A phylogenomic approach using super-trees to reconstruct prokaryotic history