ライフサイエンスコーパス: denitrificans

1 from Rhodobacter sphaeroides and Paracoccus denitrificans).

2 ria, Rhodobacter sphaeroides, and Paracoccus denitrificans).

3 to the coastal sediment isolate Sulfurimonas denitrificans.

4 for the homologous expression of MauG in P. denitrificans.

5 to the cytochrome c peroxidase of Paracoccus denitrificans.

6 e CuA center of cytochrome c oxidase from P. denitrificans.

7 ion by Rhodobacter capsulatus and Paracoccus denitrificans.

8 ng hypoxia, as does the bacterium Paracoccus denitrificans.

9 evious work with the oxidase from Paracoccus denitrificans.

10 le from those of the enzyme isolated from P. denitrificans.

11 rom the type strain (ATCC 33394) of Kingella denitrificans.

12 tes in COX of bovine heart and of Paracoccus denitrificans.

13 n cytochrome c oxidase (COX) from Paracoccus denitrificans.

14 oeae and may serve a similar function for K. denitrificans.

15 the native CuA center in COX from Paracoccus denitrificans.

16 rom the anaerobic bacterium Sterolibacterium denitrificans.

17 denitrifying bacterium Sterolibacterium (S.) denitrificans.

18 s has been studied extensively in Paracoccus denitrificans.

19 trous oxide reductase (N2OR) from Paracoccus denitrificans.

20 in was extracted from cultures of Paracoccus denitrificans.

21 ase (cNOR), from the model soil bacterium P. denitrificans.

22 ns from cytochromes c-551i and c-550 from P. denitrificans.

23 e 1occ) and of the soil bacterium Paracoccus denitrificans (1arl) include a dicopper center (CuA), ma

24 homology to CobI from the aerobe Pseudomonas denitrificans (29% identity; 51% conservation obtained b

25 ed that anaerobically grown Sterolibacterium denitrificans, a beta-proteobacterium, adopts an oxygena

26 I from the alpha-proteobacterium Paracoccus denitrificans, a close relative of the mitochondrial pro

27 (nitrate and/or nitrite) or by Thiobacillus denitrificans, a widespread, denitrifying, chemolithoaut

28 Accordingly, S. denitrificans accessed cholesterol by direction adhesion

29 interacts less strongly with the metal in P. denitrificans amicyanin than in Paracoccus versutus amic

30 he native type I copper center of Paracoccus denitrificans amicyanin was replaced with the correspond

31 explore the denitrification phenotypes of P. denitrificans and A. xylosoxidans at a range of extracel

32 bodies raised against subunits of Paracoccus denitrificans and against synthetic peptides predicted f

33 s of the cytochrome oxidases from Paracoccus denitrificans and bovine.

34 In this study, Thiomicrospira denitrificans and Candidatus Arcobacter sulfidicus, two

35 Crystal structures of the Thiobacillus denitrificans and Cupriavidus metallidurans BPHs disclos

36 Cytochrome aa3 from Paracoccus denitrificans and cytochrome ba3 from Thermus thermophil

37 cytochrome c peroxidase (CCP) of Paracoccus denitrificans and cytochromes c.

38 ogenases has previously been reported for T. denitrificans and hydrogen oxidation appears to be criti

39 This is similar to COX from Paracoccus denitrificans and is in contrast to the bovine oxidase,

40 ith two of those taxa (species Dechloromonas denitrificans and Methylovorus menthalis) can degrade CH

41 uctural and biochemical analyses of Kingella denitrificans and Neisseria gonorrhoeae HpuA mutants, al

42 In the presence of wild-type T. denitrificans and nitrate, UO(2)(s) dissolution rates we

43 roides is specifically related to Paracoccus denitrificans and Rc. gelatinosa is related to Ps. cepac

44 l inhibitor of the F1FO-ATPase of Paracoccus denitrificans and related alpha-proteobacteria.

45 en isotope fractionation was observed for T. denitrificans and S. denitrificans, indicating a prefere

46 eriments with the model strains Thiobacillus denitrificans and Sulfurimonas denitrificans, both pathw

47 munoprecipitation of labeled membranes of P. denitrificans and T. thermophilus established photoaffin

48 ents from the aa3-type oxidase of Parachccus denitrificans and the caa3-type oxidase of Bacillus subt

49 bacterial counterpart (NDH-1) in Paracoccus denitrificans and Thermus thermophilus HB-8 consists of

50 n bovine oxidase (1542 and 1314 cm(-1) in P. denitrificans) and a positive band at approximately 1519

51 on have been found-an aerobic pathway (in P. denitrificans) and an anaerobic pathway (in P. shermanii

52 tures of Rhodobacter sphaeroides, Paracoccus denitrificans, and bovine CcO derived by crystallography

53 terium related to R. sphaeroides, Paracoccus denitrificans, and is lethal to R. sphaeroides.

54 thetic bacteria, namely, Rb. sphaeroides, P. denitrificans, and Rhodospirillum rubrum.

55 rs in the bet-hedging strategy of Paracoccus denitrificans, and that systems scavenging NO under hypo

56 Candida glabrata and Atp12p from Paracoccus denitrificans, and we show that some features of the Wan

57 A structural features previously found in P. denitrificans are present also in the 5S RNA of Rb. spha

58 and present the a-proteobacterium Paracoccus denitrificans as a suitable bacterial model system for m

59 Control strains were Paracoccus denitrificans ATCC 17741(T), P. versutus ATCC 25364(T),

60 The complete genome sequence of Thiobacillus denitrificans ATCC 25259 is the first to become availabl

61 Rhodobacter sphaeroides f. sp. denitrificans biotin sulfoxide reductase (BSOR) catalyze

62 Rhodobacter sphaeroides f. sp. denitrificans biotin sulfoxide reductase catalyzes the r

63 Rhodobacter sphaeroides f. sp. denitrificans biotin sulfoxide reductase has been hetero

64 Thiobacillus denitrificans and Sulfurimonas denitrificans, both pathways resulted in a similar small

65 of the gamma subunit of the F1-ATPase of P. denitrificans by a hitherto unknown quaternary structure

66 ric cytochrome bc(1) complex from Paracoccus denitrificans by characterizing the kinetics of inhibito

67 terologous inhibition of the F1-ATPase of P. denitrificans by the mitochondrial IF1 supported both th

68 apers, cytochrome c peroxidase of Paracoccus denitrificans can accommodate horse cytochrome c and Par

69 It is proposed that P. denitrificans CcmG acts in vivo to reduce protein-disulp

70 Cloning and sequencing of the Paracoccus denitrificans ccmG gene indicates that it codes for a pe

71 S. denitrificans cells did not produce biosurfactants upon

72 nce of expression of active shewasin D in S. denitrificans cells, confirming its activity at acidic p

73 a model of the previously described human-P. denitrificans chimeric ETF protein, it is possible to id

74 iously reported hybridization patterns of K. denitrificans chromosomal DNA seen using a Neisseria gon

75 rial complex, we establish the utility of P. denitrificans complex I as a model system for the mammal

76 stabilise the closed state and completes P. denitrificans complex I as a unified platform for combin

77 We successfully reconstituted Paracoccus denitrificans complex I into circularised nanodiscs, det

78 NADH-quinone oxidoreductase from Paracoccus denitrificans consists of 14 subunits (Nqo1-14) and cont

79 quinone oxidoreductase (NDH-1) of Paracoccus denitrificans consists of at least 14 unlike subunits (d

80 Paracoccus denitrificans contains an unusual arrangement whereby tw

81 X-ray structure reported for the complete P. denitrificans cytochrome aa3 molecule and the engineered

82 anges in the P(M) intermediate of Paracoccus denitrificans cytochrome c oxidase have been investigate

83 cture of the P(M) intermediate of Paracoccus denitrificans cytochrome c oxidase was investigated by p

84 and F intermediates of bovine and Paracoccus denitrificans cytochrome c oxidase were investigated by

85 Paracoccus denitrificans cytochrome C550 is expressed as a periplas

86 eems to be the only chitinase produced by J. denitrificans, degraded both alpha- and beta-chitin.

87 Moreover, S. denitrificans did not produce extracellular catabolic en

88 disproportionation reaction catalyzed by P. denitrificans electron transfer flavoprotein-ubiquinone

89 Notably, P. denitrificans emits approximately 40% of NO(3) (-) consu

90 The cbbL cbbS and cbbM genes of Thiobacillus denitrificans, encoding form I and form II ribulose 1,5-

91 The form I T. denitrificans enzyme possessed a very low substrate spec

92 educed amino acid sequence of the form II T. denitrificans enzyme resembled those of other form II Ru

93 sequence and structures of the human and P. denitrificans enzymes as models, a detailed sequence ali

94 ssion system provided high levels of both T. denitrificans enzymes, each of which was highly purified

95 thionine for T244 in the alpha subunit of P. denitrificans ETF and expressed the mutant ETF in Escher

96 transfer reaction between either human or P. denitrificans ETF and MCAD demonstrates that the human E

97 in adenine dinucleotide (FAD) cofactor in P. denitrificans ETF gave two distributions of distances: a

98 Paracoccus denitrificans ETF has the identical function, shares the

99 ximately 10 mequiv) ionic strength, while P. denitrificans ETF is a better electron acceptor at highe

100 the human structure, the structure of the P. denitrificans ETF is comprised of three distinct domains

101 nd P. denitrificans ETFs reveals that the P. denitrificans ETF is more negatively charged.

102 f ionic differences between the human and P. denitrificans ETF onto the structure identifies a surfac

103 calculated using the crystal structure of P. denitrificans ETF, which agrees with the major component

104 haracterized, and compared with wild type P. denitrificans ETF.

105 alphaT244 has the same structural role in P. denitrificans ETF.

106 The X-ray crystal structures of human and P. denitrificans ETFs are very similar.

107 mensional structures of human and Paracoccus denitrificans ETFs determined by X-ray crystallography i

108 electrostatic potentials of the human and P. denitrificans ETFs reveals that the P. denitrificans ETF

109 ith the model denitrifying strain Paracoccus denitrificans further shows that ligand-enhanced chemica

110 ssessed the transcriptome and proteome of S. denitrificans grown with either thiosulfate or S(8) as t

111 oprotein amine dehydrogenase from Paracoccus denitrificans has been determined at 2.05-A resolution.

112 eductase from Rhodobacter sphaeroides f. sp. denitrificans has been expressed in Escherichia coli BL2

113 in methylamine dehydrogenase from Paracoccus denitrificans has been refined at 1.75 A resolution util

114 he equivalent tryptophan (W121 in Paracoccus denitrificans) has been identified as the "electron entr

115 quinone oxidoreductase (SQR) from Paracoccus denitrificans have been undertaken in the purified and m

116 both Saccharomyces cerevisiae and Paracoccus denitrificans have indicated that mutations at this site

117 gands in supporting the growth of Paracoccus denitrificans in a low-iron environment and the ability

118 cific SBP AztC from the bacterium Paracoccus denitrificans in the zinc-bound and apo-states.

119 ion was observed for T. denitrificans and S. denitrificans, indicating a preferential incorporation o

120 se from the alpha-proteobacterium Paracoccus denitrificans, inhibited by its natural regulatory zeta-

121 Amicyanin from Paracoccus denitrificans is a type 1 copper protein with three stro

122 in the beta-proteobacterium Sterolibacterium denitrificans is catalyzed by an unprecedented enzyme th

123 quinone oxidoreductase (NDH-1) of Paracoccus denitrificans is composed of 14 different subunits (desi

124 quinone oxidoreductase (NDH-1) of Paracoccus denitrificans is composed of 14 different subunits (Nqo1

125 quinone oxidoreductase (NDH-1) of Paracoccus denitrificans is composed of at least 14 different subun

126 quinone oxidoreductase (NDH-1) of Paracoccus denitrificans is composed of at least 14 subunits (NQO1-

127 quinone oxidoreductase (NDH-1) of Paracoccus denitrificans is composed of at least 14 unlike subunits

128 ation multienzyme complex (SOX), which in S. denitrificans is encoded in two gene clusters: soxABXY (

129 We demonstrate that NarK from Paracoccus denitrificans is expressed as a fusion of two NarK-like

130 Thiobacillus denitrificans is one of the few known obligate chemolith

131 odel for nitrate and nitrite transport in P. denitrificans is proposed.

132 P. denitrificans is the first system described in which mut

133 p(beta)(57) and Trp(beta)(108) in Paracoccus denitrificans MADH).

134 e methylamine utilization gene cluster of P. denitrificans, mauFBEDACJG, were placed under the regula

135 In the cholate-treated NDH-1-enriched P. denitrificans membranes, we observed EPR signals arising

136 Paracoccus denitrificans methylamine dehydrogenase (MADH) is an enz

137 teria containing type-4 pili, many of the K. denitrificans N variants still produce pilin, and some s

138 lfur, correspond to those of the isolated P. denitrificans NADH-dehydrogenase complex.

139 hat in the denitrifying bacterium Paracoccus denitrificans, NarJ serves as a chaperone for both the a

140 of NQO1 through -6 of the membrane-bound P. denitrificans NDH-1 has been determined by radioimmunoas

141 f the 7 subunits (NQO1-6 and NQO9) of the P. denitrificans NDH-1 in the membranes were investigated u

142 We demonstrated that in the Paracoccus denitrificans NDH-1 subunit, Nqo7 (ND3) directly interac

143 iometry of the peripheral subunits of the P. denitrificans NDH-1 was completed by radioimmunological

144 O4, -5, and -6 subunits in membrane-bound P. denitrificans NDH-1 were extracted by treatment at alkal

145 e subunits homologous to those of Paracoccus denitrificans NDH-1, respectively, and are arranged in t

146 properties of the NQO9 subunit of Paracoccus denitrificans NDH-1, which is predicted to contain 2x[4F

147 e NQO1 through -6 subunits per mol of the P. denitrificans NDH-1.

148 ated the total number of cofactors in the P. denitrificans NDH-1; the enzyme complex contains one mol

149 The enzyme from Paracoccus denitrificans (NorBC) contains two subunits; NorB compri

150 ry similar to those of N1a cluster in the P. denitrificans NQO2 subunit.

151 or the homologous D477A mutant of Paracoccus denitrificans or for bovine COX (K(d) = 1-3 microM).

152 on haem-iron as a cofactor (e.g. Paracoccus denitrificans) or a Nir that is solely dependent on copp

153 This includes H456A, where in the P. denitrificans oxidase a leucine residue substituted for

154 is the equivalent of residue E78II of the P. denitrificans oxidase).

155 the known processing site of the Paracoccus denitrificans oxidase, does not produce the same enzyme

156 For both bovine and P. denitrificans oxidase, the major features of the IR diff

157 f the soil denitrifying bacterium Paracoccus denitrificans PD1222 was analysed with nitrate as sole e

158 nhibition in a model denitrifier, Paracoccus denitrificans Pd1222.

159 Kingella denitrificans possess type-4 pili, and the type strain,

160 Both form I and form II RubisCO from T. denitrificans possessed high KCO2 values, suggesting tha

161 Endogenous T. denitrificans promoters were shown to function in R. sph

162 We separated S. denitrificans proteins into four fractions, namely the o

163 tructure of the related MADH from Paracoccus denitrificans recently reported.

164 The NO reductase from Paracoccus denitrificans reduces NO to N2O (2NO + 2H(+) + 2e(-) -->

165 ylamine dehydrogenase (MADH) from Paracoccus denitrificans requires four genes in addition to those t

166 ylamine dehydrogenase (MADH) from Paracoccus denitrificans requires four genes in addition to those t

167 Expression of active MADH from P. denitrificans requires four other genes in addition to t

168 on the cytochrome c oxidase from Paracoccus denitrificans revealed an unexpected coupling between th

169 uce this compound in recombinant Pseudomonas denitrificans revealed that 3-HP is consumed by this mic

170 rystallographic structure of the Pseudomonas denitrificans S-adenosyl-L-methionine-dependent uroporph

171 mmaproteobacterial methanotroph Methylomonas denitrificans sp. nov. strain FJG1(T) couples methane ox

172 anotrophs as well as the pxmABC operon in M. denitrificans sp. nov. strain FJG1(T) in response to hyp

173 y such as nitrate reductase NarGH serving M. denitrificans sp. nov. strain FJG1(T) to conserve energy

174 S. denitrificans spheroplasts exhibited a significantly hig

175 id sequence of cytochrome c550 of Paracoccus denitrificans strain LMD 52.44 was determined and showed

176 conserved in Pichia pastoris and Paracoccus denitrificans, suggesting that they are functionally sig

177 lement deletions in both narK and nasA in P. denitrificans, suggesting that, while these proteins are

178 Finally, we develop a strain of P. denitrificans that is amenable to complex I mutagenesis

179 de permease (opp) gene cluster of Paracoccus denitrificans that lacks any observable reactivity with

180 yme, Jd1381 from the actinobacterium Jonesia denitrificans, that uniquely combines two different poly

181 In the coastal S. denitrificans, the genes are arranged and expressed as t

182 In Paracoccus denitrificans, the pathway-specific two-component regula

183 her with a functional interaction between P. denitrificans TIR and MyD88 visualized in a co-immunopre

184 The three-dimensional fold of Paracoccus denitrificans TIR is identical to that observed for the

185 evidence for the capability of Thiobacillus denitrificans to anaerobically oxidize a putatively nano

186 hane-acclimated sludge (including Paracoccus denitrificans) to facilitate electron transfer by provid

187 ewasin D, the pepsin homolog from Shewanella denitrificans, to gain further insight into this group o

188 onine 244 in the alpha subunit of Paracoccus denitrificans transfer flavoprotein (ETF) lies seven res

189 he biological reduction of N2O by Paracoccus denitrificans using methanol as a carbon/electron source

190 transfer flavoprotein (ETF) from Paracoccus denitrificans was determined and refined to an R-factor

191 I copper protein, amicyanin from Paracoccus denitrificans was determined at 1.8 A resolution.

192 n situ hybridization analyses showed that P. denitrificans was dominant (>50%) after 6 months of expe

193 S. denitrificans was further shown to be able to oxidize cy

194 d BchZ from the purple bacterium Roseobacter denitrificans was trapped in the presence of the ATP tra

195 A DeltacbiX mutant in P. denitrificans was unable to respire anaerobically on nit

196 cture of a new cluster 9 SBP from Paracoccus denitrificans we have called AztC.

197 tive accessory factor (AztD) from Paracoccus denitrificans, we have analyzed its transcriptional regu

198 os taurus) and from the bacterium Paracoccus denitrificans, we show that four protons are pumped for

199 The F1-ATPase and F1-zeta models of P. denitrificans were supported by cross-linking, limited p

200 invasive Kingella species, K. oralis and K. denitrificans, were found to be noncytotoxic and to lack

201 rved in cytochrome c oxidase from Paracoccus denitrificans, were similarly associated with the heme A

202 Corynebacterium aurimucosum, and Pseudomonas denitrificans, which are usually commensal in healthy in

203 d a prototypical delta-24 desaturase from S. denitrificans, which catalyzes the electron acceptor-dep

204 ch as Rhodobacter sphaeroides and Paracoccus denitrificans, which contain an additional mitochondrial

205 in from the marine proteobactrium Shewanella denitrificans, which exhibits an innate dimeric structur

206 In contrast, Paracoccus denitrificans, which has membrane-bond NO(3) (-) reducta

207 inone oxidoreductase (NDH-1) from Paracoccus denitrificans, which is composed of the NQO1 (50 kDa) an

208 and feature analysis of the AAP Roseobacter denitrificans, which reveal clues to its physiology.

209 Human and Paracoccus denitrificans wild-type electron transfer flavoproteins

210 Ultimately, the genome sequence of T. denitrificans will enable elucidation of the mechanisms

211 e I copper protein amicyanin from Paracoccus denitrificans with cobalt.

212 Expression in Paracoccus denitrificans yielded no holoprotein.

213 revealed by the structure of the Paracoccus denitrificans zeta-subunit in complex with ADP.