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Saluja AK, McFadden BA. Inhibition of ribulose bisphosphate carboxylase/oxygenase by sedoheptulose-1,7-bisphosphate. FEBS Lett 2001. [DOI: 10.1016/0014-5793(78)80437-2] [Citation(s) in RCA: 16] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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2
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Elsaied H, Naganuma T. Phylogenetic diversity of ribulose-1,5-bisphosphate carboxylase/oxygenase large-subunit genes from deep-sea microorganisms. Appl Environ Microbiol 2001; 67:1751-65. [PMID: 11282630 PMCID: PMC92794 DOI: 10.1128/aem.67.4.1751-1765.2001] [Citation(s) in RCA: 96] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2000] [Accepted: 02/02/2001] [Indexed: 11/20/2022] Open
Abstract
The phylogenetic diversity of the ribulose-1,5-bisphosphate carboxylase/oxygenase (RuBisCO, E.C. 4.1.1.39) large-subunit genes of deep-sea microorganisms was analyzed. Bulk genomic DNA was isolated from seven samples, including samples from the Mid-Atlantic Ridge and various deep-sea habitats around Japan. The kinds of samples were hydrothermal vent water and chimney fragment; reducing sediments from a bathyal seep, a hadal seep, and a presumed seep; and symbiont-bearing tissues of the vent mussel, Bathymodiolus sp., and the seep vestimentiferan tubeworm, Lamellibrachia sp. The RuBisCO genes that encode both form I and form II large subunits (cbbL and cbbM) were amplified by PCR from the seven deep-sea sample DNA populations, cloned, and sequenced. From each sample, 50 cbbL clones and 50 cbbM clones, if amplified, were recovered and sequenced to group them into operational taxonomic units (OTUs). A total of 29 OTUs were recorded from the 300 total cbbL clones, and a total of 24 OTUs were recorded from the 250 total cbbM clones. All the current OTUs have the characteristic RuBisCO amino acid motif sequences that exist in other RuBisCOs. The recorded OTUs were related to different RuBisCO groups of proteobacteria, cyanobacteria, and eukarya. The diversity of the RuBisCO genes may be correlated with certain characteristics of the microbial habitats. The RuBisCO sequences from the symbiont-bearing tissues showed a phylogenetic relationship with those from the ambient bacteria. Also, the RuBisCO sequences of known species of thiobacilli and those from widely distributed marine habitats were closely related to each other. This suggests that the Thiobacillus-related RuBisCO may be distributed globally and contribute to the primary production in the deep sea.
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Affiliation(s)
- H Elsaied
- School of Biosphere Sciences, Hiroshima University, 1-4-4 Kagamiyama, Higashi-hiroshima 739-8528, Japan
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Hariharan T, Johnson PJ, Cattolico RA. Purification and characterization of phosphoribulokinase from the marine chromophytic alga Heterosigma carterae. PLANT PHYSIOLOGY 1998; 117:321-329. [PMID: 9576802 PMCID: PMC35018 DOI: 10.1104/pp.117.1.321] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/30/1997] [Accepted: 02/11/1998] [Indexed: 05/22/2023]
Abstract
In this study we characterized phosphoribulokinase (PRK, EC 2.7.1. 19) from the eukaryotic marine chromophyte Heterosigma carterae. Serial column chromatography resulted in approximately 300-fold purification of the enzyme. A polypeptide of 53 kD was identified as PRK by sequencing the amino terminus of the protein. This protein represents one of the largest composite monomers identified to date for any PRK. The native holoenzyme demonstrated by flow performance liquid chromatography a molecular mass of 214 +/- 12.6 kD, suggesting a tetrameric structure for this catalyst. Because H. carterae PRK activity was insensitive to NADH but was stimulated by dithiothreitol, it appears that the enzyme may require a thioredoxin/ferredoxin rather than a metabolite mode of regulation. Kinetic analysis of this enzyme demonstrated Michaelis constant values of ribulose-5-phosphate (226 microM) and ATP (208 microM), respectively. In summary, H. carterae PRK is unique with respect to holoenzyme structure and function, and thus may represent an alternative evolutionary pathway in Calvin-cycle kinase development.
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Affiliation(s)
- T Hariharan
- Department of Botany, and School of Oceanography, University of Washington, Seattle, Washington 98195, USA
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Rajagopalan R, Altekar W. Characterisation and purification of ribulose-bisphosphate carboxylase from heterotrophically grown halophilic archaebacterium, Haloferax mediterranei. EUROPEAN JOURNAL OF BIOCHEMISTRY 1994; 221:863-9. [PMID: 8174567 DOI: 10.1111/j.1432-1033.1994.tb18801.x] [Citation(s) in RCA: 20] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Abstract
The CO2-fixing enzyme of Calvin cycle ribulose-1,5-bisphosphate-carboxylase/oxygenase has been isolated from a halophilic bacterium, Haloferax mediterranei grown heterotrophically. A homogeneous preparation was obtained from sonicated extract of the cells by three steps, resulting in a specific activity of 52 nmol.min-1.mg protein-1. The physicochemical and catalytic properties of the enzyme were studied. The halobacterial ribulose-bisphosphate carboxylase is an oligomer of 54-kDa and 14-kDa subunits as detected by SDS/PAGE. By sucrose-density-gradient centrifugation, the molecular mass of the enzyme was estimated as approximately 500 kDa indicating a hexadecameric nature. No evidence for an additional form of the enzyme devoid of small subunits was obtained. The enzyme required Mg2+ for activity, KCl for activity and stability, and an optimal pH of 7.8. In contrast to many halophilic proteins, ribulose-bisphosphate carboxylase from H. mediterranei is not an acidic protein. From the comparison of amino acid composition of halobacterial enzyme with its counterparts from a few eukaryotic and eubacterial sources, the S delta Q values showed that these proteins share some compositional similarities.
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Affiliation(s)
- R Rajagopalan
- Radiation Biology and Biochemistry Division, Bhabha Atomic Research Centre, Bombay, India
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Mikulik K, Benada O, Anderova M. Ribulose-1,5-bisphosphate carboxylase of thermophilic hydrogen-oxidizing microorganism Bacillus schlegelii. Biochem Biophys Res Commun 1992; 182:425-31. [PMID: 1731799 DOI: 10.1016/s0006-291x(05)80162-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
Ribulose-1,5-bisphosphate carboxylase was isolated from thermophilic hydrogen-oxidizing Bacillus schlegelii. Molecular mass of the native enzyme is 560,000 and optimal reaction temperature is 70 degrees C. Km value for ribulose 1,5-bisphosphate is 0.27 mM. The carboxylase activity of the enzyme is dependent on Mg2+ with the optimum at 10 mM. The enzyme is an oligomer of L8S8 type with Mr of large subunits and small subunits of 56,000 and 14,000, respectively. Negatively stained enzyme has regular polygonal shape in top view, 12 nm in diameter, with central electron dense patch.
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Affiliation(s)
- K Mikulik
- Institute of Microbiology, Czechoslovak Academy of Sciences, Prague
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6
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Glover HE. Ribulosebisphosphate Carboxylase/Oxygenase in Marine Organisms. INTERNATIONAL REVIEW OF CYTOLOGY 1989. [DOI: 10.1016/s0074-7696(08)60628-2] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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8
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Torres-Ruiz JA, McFadden BA. A homolog of ribulose bisphosphate carboxylase/oxygenase-binding protein in Chromatium vinosum. Arch Biochem Biophys 1988; 261:196-204. [PMID: 3341773 DOI: 10.1016/0003-9861(88)90118-x] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
A 700-kDa protein composed of 12 apparently identical 60-kDa subunits copurifies with the L8S8 form of ribulose bisphosphate carboxylase/oxygenase (RuBisCO) from Chromatium vinosum. Chromatography on DEAE-Sephadex A-50 separates the two proteins in pure form. On the basis of the highly reproducible copurification and reaction of the 700-kDa protein with antibodies to pea RuBisCO large (L)-subunit-binding protein, the protein from C. vinosum is designated as a putative binding protein (PBP) for RuBisCO. Also the N-terminal sequence of PBP is quite similar to that of both alpha and beta subunits of the L-subunit-binding protein. Our present research suggests that PBP may be a RuBisCO small-subunit-binding protein in C. vinosum. Measurements of RuBisCO activity and of species that immunologically cross react with RuBisCO or PBP (by enzyme-linked immunosorbent assay) establish that levels of the two proteins vary together in C. vinosum grown on different carbon sources.
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Affiliation(s)
- J A Torres-Ruiz
- Biochemistry/Biophysics Program, Washington State University, Pullman 99164-4660
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9
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Affiliation(s)
- G A Codd
- Department of Biological Sciences, University of Dundee, UK
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Weaver KE, Tabita FR. Complementation of a Rhodopseudomonas sphaeroides ribulose bisphosphate carboxylase-oxygenase regulatory mutant from a genomic library. J Bacteriol 1985; 164:147-54. [PMID: 3876330 PMCID: PMC214223 DOI: 10.1128/jb.164.1.147-154.1985] [Citation(s) in RCA: 18] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023] Open
Abstract
A genomic library containing HindIII partial digests of Rhodopseudomonas sphaeroides HR DNA was constructed in the broad-host-range cosmid cloning vector pVK102. With a portion of this library as donor in complementation studies with the ribulose 1,5-bisphosphate carboxylase-oxygenase regulatory mutant R. sphaeroides KW25/11, a fragment of DNA which is capable of partially complementing this mutant was isolated. In four independent matings, Aut+ transconjugants which contained a hybrid plasmid carrying the same 28-kilobase-pair insert were isolated. While complemented strains were capable of growing at rates equal to that of the wild type under photoautotrophic conditions, they were not able to match wild-type levels of ribulose 1,5-biphosphate carboxylase-oxygenase activity or of form I ribulose 1,5-bisphosphate carboxylase-oxygenase protein. In addition, there is some indication that recombination may be necessary for optimal complementation to occur. The size of the complementing fragment was further reduced to 2.7 kilobase pairs by using vectors constructed for subcloning.
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12
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Torres-Ruiz JA, McFadden BA. Isolation of L8 and L8S8 forms of ribulose bisphosphate carboxylase/oxygenase from Chromatium vinosum. Arch Microbiol 1985; 142:55-60. [PMID: 4037978 DOI: 10.1007/bf00409237] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
The enzyme ribulose bisphosphate carboxylase/oxygenase has been purified from Chromatium vinosum. When an extract is subjected to centrifugation at 35,000 X g in the presence of polyethylene glycol (PEG)-6000 and the supernatant is treated with 50 mM Mg2+ and the precipitate is then fractionated by vertical centrifugation into a reoriented sucrose gradient followed by chromatography on diethylaminoethyl (DEAE)-Sephadex A50, the resultant enzyme contains large (L) and small (S) subunits. Alternatively, centrifugation of extracts at 175,000 X g in the presence of PEG-6000 followed by fractionation with Mg2+, density gradient centrifugation, and chromatography on DEAE-Sephadex A50 yields an enzyme free of small subunits. The two forms have comparable carboxylase and oxygenase activities and have compositions and molecular weights corresponding to L8 and L8S8 enzymes. The amino acid compositions of L and S subunits are reported. The L8S8 enzyme from spinach cannot be similarly dissociated by centrifugation at 175,000 X g in the presence of PEG-6000.
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Abstract
The classification of plants has traditionally been dependent upon the comparative analysis of morphological and biochemical data. In this paper the use of molecular probe analysis of chloroplast DNA (ctDNA) is used to expand the data base used in taxonomic studies. Chloroplast DNA size, homogeneity, the global arrangement of ctDNA structure, gene content, gene cluster array and gene sequence determination are discussed as useful criteria in the analysis of phylogenetic relationships.
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14
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Quivey RG, Tabita FR. Cloning and expression in Escherichia coli of the form II ribulose 1,5-bisphosphate carboxylase/oxygenase gene from Rhodopseudomonas sphaeroides. Gene 1984; 31:91-101. [PMID: 6396166 DOI: 10.1016/0378-1119(84)90198-7] [Citation(s) in RCA: 47] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
The gene encoding the form II ribulose 1,5-bisphosphate carboxylase/oxygenase (RuBPC/O) from Rhodopseudomonas (R.) sphaeroides has been identified on a 3-kb EcoRI fragment and cloned into a broad-host-range, high-copy-number plasmid, using the gene from Rhodospirillum (Rs.) rubrum as a hybridization probe. Subclones of the gene from R. sphaeroides in pBR322 and pUC8 show substantial levels of expression and enzymatic activity in whole cells and crude cell extracts of Escherichia coli. This enzymatic activity has been shown to be similar in many respects to that of the protein purified from R. sphaeroides.
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15
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Dijkhuizen L, Harder W. Current views on the regulation of autotrophic carbon dioxide fixation via the Calvin cycle in bacteria. Antonie Van Leeuwenhoek 1984; 50:473-87. [PMID: 6099093 DOI: 10.1007/bf02386221] [Citation(s) in RCA: 40] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Abstract
The Calvin cycle of carbon dioxide fixation constitutes a biosynthetic pathway for the generation of (multi-carbon) intermediates of central metabolism from the one-carbon compound carbon dioxide. The product of this cycle can be used as a precursor for the synthesis of all components of cell material. Autotrophic carbon dioxide fixation is energetically expensive and it is therefore not surprising that in the various groups of autotrophic bacteria the operation of the cycle is under strict metabolic control. Synthesis of phosphoribulokinase and ribulose-1,5-bisphosphate carboxylase, the two enzymes specifically involved in the Calvin cycle, is regulated via end-product repression. In this control phosphoenolpyruvate most likely has an alarmone function. Studies of the enzymes isolated from various sources have indicated that phosphoribulokinase is the target enzyme for the control of the rate of carbon dioxide fixation via the Calvin cycle through modulation of existing enzyme activity. In general, this enzyme is strongly activated by NADH, whereas AMP and phosphoenolpyruvate are effective inhibitors. Recent studies of phosphoribulokinase in Alcaligenes eutrophus suggest that this enzyme may also be regulated via covalent modification.
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16
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Hartman FC, Stringer CD, Lee EH. Complete primary structure of ribulosebisphosphate carboxylase/oxygenase from Rhodospirillum rubrum. Arch Biochem Biophys 1984; 232:280-95. [PMID: 6430239 DOI: 10.1016/0003-9861(84)90544-7] [Citation(s) in RCA: 49] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
Of the 14 cyanogen bromide fragments derived from Rhodospirillum rubrum ribulosebisphosphate carboxylase/oxygenase, four are too large to permit complete sequencing by direct means [F. C. Hartman, C. D. Stringer, J. Omnaas, M. I. Donnelly, and B. Fraij (1982) Arch. Biochem. Biophys. 219, 422-437]. These have now been digested with proteases, and the resultant peptides have been purified and sequenced, thereby providing the complete sequences of the original fragments. With the determination of these sequences, the total primary structure of the enzyme is provided. The polypeptide chain consists of 466 residues, 144 (31%) of which are identical to those at corresponding positions of the large subunit of spinach ribulosebisphosphate carboxylase/oxygenase. Despite the low overall homology, striking homology between the two species of enzyme is observed in those regions previously implicated at the catalytic and activator sites.
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17
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Weaver KE, Tabita FR. Isolation and partial characterization of Rhodopseudomonas sphaeroides mutants defective in the regulation of ribulose bisphosphate carboxylase/oxygenase. J Bacteriol 1983; 156:507-15. [PMID: 6313604 PMCID: PMC217861 DOI: 10.1128/jb.156.2.507-515.1983] [Citation(s) in RCA: 54] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023] Open
Abstract
Several mutants of Rhodopseudomonas sphaeroides defective in the derepression of the enzyme ribulose 1,5-bisphosphate carboxylase have been isolated by using the unstable Tn5 vectors pJB4JI and pRK340. Transpositional insertion mutants obtained with pJB4JI were demonstrated to be incapable of increasing ribulose 1,5-bisphosphate carboxylase/oxygenase levels when grown on butyrate-bicarbonate medium or under conditions of carbon starvation, whereas the wild-type strain increased activity four- to eightfold. When the wild-type strain was starved for carbon in the presence of chloramphenicol, no derepression was observed. Crude extracts from mutant and wild-type strains had distinct and consistent differences in protein content as observed by sodium dodecyl sulfate-polyacrylamide gel electrophoresis. Chromatographic evidence indicated that mutants were defective in the regulation of only one of the two forms of ribulose 1,5-bisphosphate carboxylase/oxygenase synthesized by R. sphaeroides.
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18
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19
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Fraij B, Hartman FC. Isolation and sequencing of an active-site peptide from Rhodospirillum rubrum ribulosebisphosphate carboxylase/oxygenase after affinity labeling with 2-[(bromoacetyl)amino]pentitol 1,5-bisphosphate. Biochemistry 1983; 22:1515-20. [PMID: 6404301 DOI: 10.1021/bi00275a028] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
2-[(Bromoacetyl)amino]pentitol 1,5-bisphosphate was reported to be a highly selective affinity label for ribulosebisphosphate carboxylase/oxygenase from Rhodospirillum rubrum [Fraij, B., & Hartman, F. C. (1982) J. Biol. Chem. 257, 3501-3505]. The enzyme has now been inactivated with a 14C-labeled reagent in order to identify the target residue at the sequence level. Subsequent to inactivation, the enzyme was carboxymethylated with iodoacetate and then digested with trypsin. The only radioactive peptide in the digest was obtained at a high degree of purity by successive chromatography on DEAE-cellulose, SP-Sephadex, and Sephadex G-25. On the basis of amino acid analysis of the purified peptide, the derivatized residue was a methionyl sulfonium salt. Automated Edman degradation confirmed the purity of the labeled peptide and established its sequence as Leu-Gln- Gly-Ala-Ser-Gly-Ile-His-Thr-Gly-Thr-Met-Gly-Phe-Gly-Lys-Met-Glu-Gly-Glu-Ser-Ser - Asp-Arg. Cleavage of this peptide with cyanogen bromide showed that the reagent moiety was covalently attached to the second methionyl residue. Sequence homology with the carboxylase/oxygenase from spinach indicates that the lysyl residue immediately preceding the alkylated methionine corresponds to Lys-334, a residue previously implicated at the active site.
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20
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Hartman FC, Stringer CD, Omnaas J, Donnelly MI, Fraij B. Purification and sequencing of cyanogen bromide fragments from ribulosebisphosphate carboxylase/oxygenase from Rhodospirillum rubrum. Arch Biochem Biophys 1982; 219:422-37. [PMID: 6819814 DOI: 10.1016/0003-9861(82)90174-6] [Citation(s) in RCA: 22] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
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21
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13C-NMR study of the glucose synthesis pathways in the bacterium Chlorobium thiosulfatophilum. BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH 1982. [DOI: 10.1016/0167-4889(82)90055-6] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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22
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Saluja AK, McFadden BA. Modification of active site histidine in ribulosebisphosphate carboxylase/oxygenase. Biochemistry 1982; 21:89-95. [PMID: 6800404 DOI: 10.1021/bi00530a016] [Citation(s) in RCA: 32] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
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23
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Christeller JT. The effects of bivalent cations on ribulose bisphosphate carboxylase/oxygenase. Biochem J 1981; 193:839-44. [PMID: 6796054 PMCID: PMC1162675 DOI: 10.1042/bj1930839] [Citation(s) in RCA: 70] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Abstract
The half-saturation constants for binding of the bivalent cations (Mg2+, Ni2+, Co2+, Fe2+ and Mn2+) to ribulose bisphosphate carboxylase/oxygenase from Glycine max and Rhodospirillum rubrum were measured. The values obtained were dependent on the enzyme and the cation present, but were the same for both oxygenase and carboxylase activities. Ribulose bisphosphate rather than its cation complex was the true substrate. The kinetic parameters Vmax.(CO2), Vmax.(O2), Km(CO2), Km(O2), and K1(O2) were determined for both enzymes and each cation activator. The evolutionary and mechanistic implications of these data are discussed.
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Brannan DK, Caldwell DE. Thermothrix thiopara:
Growth and Metabolism of a Newly Isolated Thermophile Capable of Oxidizing Sulfur and Sulfur Compounds. Appl Environ Microbiol 1980; 40:211-6. [PMID: 16345601 PMCID: PMC291554 DOI: 10.1128/aem.40.2.211-216.1980] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Thermothrix thiopara
is isolated from hot sulfur springs. It occurs in situ at a temperature of 72�C, a pH of 7.0, and an HS
-
concentration of 17.4 μmol/liter (0.8 ppm). The organism was capable of autotrophic growth. Sulfite, sulfur, and polythionates were formed and subsequently degraded to sulfate during growth with thiosulfate as the sole energy source. Thiosulfate was oxidized by the polythionate pathway, and the stoichiometry of growth on thiosulfate was determined. The organism was also capable of heterotrophic growth in amino acids and simple sugars. A source of reduced sulfur (methionine, glutathione) was required for heterotrophic growth. Growth occurred aerobically or anaerobically with nitrate as a terminal oxidant. Both nitrous oxide and dinitrogen were produced. At 73�C the maximum autotrophic growth rate in batch culture using thiosulfate was 0.56 generation per h. Under the same conditions in continuous culture, washout occurred at a dilution rate of 0.3 to 0.4 per h, corresponding to a cellular growth rate of 0.43 to 0.58 generation per h. This was nearly three times the growth rate for
Thiobacillus denitrificans. T. thiopara
is gram negative. It was also found to be both lysozyme and penicillin susceptible. As a result, this organism cannot be considered an archaebacterium.
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Affiliation(s)
- D K Brannan
- Department of Biology, University of New Mexico, Albuquerque, New Mexico 87131
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Gordon GL, Lawlis VB, McFadden BA. 2-Carboxy-D-hexitol 1,6-bisophosphate: an inhibitor of D-ribulose 1,5-bisphosphate carbosylase/oxygenase. Arch Biochem Biophys 1980; 199:400-12. [PMID: 7362236 DOI: 10.1016/0003-9861(80)90296-9] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
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26
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Gibson JL, Tabita FR. Activation of ribulose 1,5-bisphosphate carboxylase from Rhodopseudomonas sphaeroides: probable role of the small subunit. J Bacteriol 1979; 140:1023-7. [PMID: 316430 PMCID: PMC216748 DOI: 10.1128/jb.140.3.1023-1027.1979] [Citation(s) in RCA: 35] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022] Open
Abstract
The activation properties of the form I and form II ribulose 1,5-bisphosphate carboxylases from Rhodopseudomonas sphaeroides were examined. Both enzymes have a requirement of Mg2+ for optimal activity. Mn2+, Ni2+, and Co2+ can also support activity of the form I enzyme, whereas only Mn2+ can substitute for Mg2+ with the form II enzyme. The effect of different preincubations on the carboxylase reaction was also examined. Both enzymes exhibited a lag when preincubated with other than Mg2+ and CO2 before assay, but the lag was much more pronounced and the rate of the reaction was slower with the form I enzyme under these conditions. Activation of the form I carboxylase By Mg2+ and CO2 occurred more rapidly than that of the form II enzyme. The results obtained with the two distinct forms of carboxylase from R. sphaeroides, as well as studies with the spinach and Rhodospirillum rubrum enzymes, thus indicate that the presence of the small subunit affects the rate of activation by Mg2+ and CO2 as well as the rate of reactivation of ribulose bisphosphate-inactivated enzyme.
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27
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Whitman W, Martin M, Tabita F. Activation and regulation of ribulose bisphosphate carboxylase-oxygenase in the absence of small subunits. J Biol Chem 1979. [DOI: 10.1016/s0021-9258(19)86691-7] [Citation(s) in RCA: 33] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022] Open
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28
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Codd G, Cook CM, Stewart W. Purification and subunit structure of d-Ribulose 1,5-bisphosphate carboxylase from the cyanobacterium Aphanothece halophytica. FEMS Microbiol Lett 1979. [DOI: 10.1111/j.1574-6968.1979.tb04282.x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
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29
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Harrison D, Rogers L, Smith A. d-Ribulose 1,5-bisphosphate carboxylase of the nitrifying bacterium, Nitrobacter agilis. FEMS Microbiol Lett 1979. [DOI: 10.1111/j.1574-6968.1979.tb04275.x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022] Open
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30
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Lawlis VB, Gordon GL, McFadden BA. Ribulose 1,5-bisphosphate carboxylase/oxygenase from Pseudomonas oxalacticus. J Bacteriol 1979; 139:287-98. [PMID: 457602 PMCID: PMC216857 DOI: 10.1128/jb.139.1.287-298.1979] [Citation(s) in RCA: 21] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
Abstract
Ribulose 1,5-bisphosphate carboxylase/oxygenase was purified by a rapid, facile procedure from formate-grown Pseudomonas oxalaticus. The electrophoretically homogeneous enzyme had specific activities of 1.9 mumol of CO2 fixed per min per mg of protein and 0.15 mumol of O2 consumed per min per mg of protein. The amino acid composition was similar to that of other bacterial sources of the enzyme. The molecular weights determined by sedimentation equilibrium and by gel filtration were 421,000 and 450,000, respectively. Upon sodium dodecyl sulfate electrophoresis of enzyme purified under conditions which would limit proteolysis, two types of large (L) subunits and two types of small (S) subunits were observed with apparent molecular weights of 57,000, 55,000, 17,000 and 15,000. By densitometric scans at two different protein concentrations the stoichiometry of the total large to total small subunits was 1:1, implying an L6S6 structure. Electron micrographs of the enzyme revealed an unusual structure that was inconsistent with a cubical structure. The enzyme had an unusually high Km for ribulose 1,5-bisphosphate (220 microM) and was strongly inhibited by 6-phosphogluconate in the ribulose 1,5-bisphosphate carboxylase assay (Ki = 270 microM). One, 5, and 12 days after purification the enzyme was half-maximally activated at 0.13 microM, 0.23 mM, and 0.70 mM CO2, respectively, at saturating Mg2+. At saturating CO2, enzyme 1 day afer purification responded sigmoidally to Mg2+ and was half-maximally activated by 0.85 mM Mg2+ in the absence of 6-phosphogluconate (Hill coefficient, h = 2.0) and by 0.19 mM Mg2+ in the presence of mM 6-phosphogluconate (h = 1.7).
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Purohit K, McFadden BA. Ribulose 1,5-bisphosphate carboxylase and oxygenase from Thiocapsa roseopersicina: activation and catalysis. Arch Biochem Biophys 1979; 194:101-6. [PMID: 109042 DOI: 10.1016/0003-9861(79)90599-x] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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Purohit K, McFadden BA, Lawlis VB. Ribulose bisphosphate carboxylase/oxygenase from Thiocapsa roseopersicina. Arch Microbiol 1979. [DOI: 10.1007/bf00409208] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Schloss JV, Phares EF, Long MV, Norton IL, Stringer CD, Hartman FC. Isolation, characterization, and crystallization of ribulosebisphosphate carboxylase from autotrophically grown Rhodospirillum rubrum. J Bacteriol 1979; 137:490-501. [PMID: 33152 PMCID: PMC218475 DOI: 10.1128/jb.137.1.490-501.1979] [Citation(s) in RCA: 70] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Abstract
Serial culture of Rhodospirillum rubrum with 2% CO2 in H2 as the exclusive carbon source resulted in a rather large fraction of the soluble protein (greater than 40%) being comprised of ribulosebisphosphate carboxylase (about sixfold higher than the highest value previously reported). Isolation of the enzyme from these cells revealed that it has physical and kinetic properties similar to those previously described for the enzyme derived from cells grown on butyrate. Notably, the small subunit (which is a constituent of the carboxylase from eucaryotes and most procaryotes) was absent in the enzyme from autotrophically grown R. rubrum. Edman degradation of the purified enzyme revealed that the NH2 terminus is free (in contrast to the catalytic subunit of the carboxylase from eucaryotes) and that the NH2-terminal sequence is Met-Asp-Gln-Ser-Ser-Arg-Tyr-Val-Asn-Leu-Ala-Leu-Lys-Glu-Glu-Asp-Leu-Ile-Ala-Gly-Gly-Glx-His-Val-Leu-. Crystals of the enzyme were readily obtained by dialysis against distilled water.
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Lawlis VB, Gordon GL, McFadden BA. Regulation of activation of ribulose bisphosphate carboxylase from Pseudomonas oxalaticus. Biochem Biophys Res Commun 1978; 84:699-705. [PMID: 718711 DOI: 10.1016/0006-291x(78)90761-1] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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Lorimer GH. Retention of the oxygen atoms at carbon-2 and carbon-3 during the carboxylation of ribulose 1,5-bisphosphate. EUROPEAN JOURNAL OF BIOCHEMISTRY 1978; 89:43-50. [PMID: 699916 DOI: 10.1111/j.1432-1033.1978.tb20894.x] [Citation(s) in RCA: 18] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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37
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Shively JM, Saluja A, McFadden BA. Ribulose bisphosphate carboxylase from methanol-grown Paracoccus denitrificans. J Bacteriol 1978; 134:1123-32. [PMID: 659365 PMCID: PMC222363 DOI: 10.1128/jb.134.3.1123-1132.1978] [Citation(s) in RCA: 19] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022] Open
Abstract
Paracoccus denitrificans grows on methanol as the sole source of energy and carbon, which it assimilates aerobically via the reductive pentose phosphate cycle. This gram-negative bacterium grew rapidly on 50 mM methanol (generation time, 7 h, 30 degrees C) in excellent yield (3 g of wet-packed cells per liter of culture). Electron microscopic studies indicated that the late-log-phase cells were coccoid, having a thick envelope surrounding a layer of more diffuse electron-dense material and a relatively electron-transparent core. Ribulose bisphosphate carboxylase in the 15,000 X g supernatant of fresh cells had specific activities (micromoles of CO2 fixed per minute per milligram of protein) of 0.026, 0.049, 0.085, 0.128, and 0.034 during the lag, early, mild-, and late log, and late stationary phases, respectively. The enzyme was purified 40-fold by pelleting at 159,000 X g, salting out, sedimentation into a 0.2 to 0.8 M linear sucrose gradient, and elution from a diethylaminoethyl-Sephadex column. The enzyme was homogeneous by the criteria of electrophoresis on polyacrylamide gels polymerized from several acrylamide concentrations and sedimentation behavior. The molecular weight of the native enzyme, as measured by gel electrophoresis and gel filtration, averaged 525,000. Sodium dodecyl sulfate dissociated the enzyme into two types of subunits with molecular weights of 55,000 and 13,600. The S20,w of the enzyme was 14.0 Km values for ribulose bisphosphate and CO2 were 0.166 and 0.051 mM, respectively, and the enzyme was inhibited to the extent of 94% by 1 mM 6-phosphogluconate.
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Whitman WB, Tabita FR. Modification of Rhodospirillum rubrum ribulose bisphosphate carboxylase with pyridoxal phosphate. 1. Identification of a lysyl residue at the active site. Biochemistry 1978; 17:1282-7. [PMID: 26381 DOI: 10.1021/bi00600a023] [Citation(s) in RCA: 33] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Ribulose 1,5-bisphosphate carboxylase isolated from Rhodospirillum rubrum was strongly inhibited by low concentrations of pyridoxal 5'-phosphate. Activity was protected by the substrate ribulose bisphosphate and to a lesser extent by other phosphorylated compounds. Pyridoxal phosphate inhibition was enhanced in the presence of magnesium and bicarbonate, but not in the presence of either compound alone. Concomitant with inhibition of enzyme activity, pyridoxal phosphate forms a Schiff base with the enzyme which is reversible upon dialysis and reducible with sodium borohydride. Subsequent to reduction of the Schiff base with tritiated sodium borohydride, tritiated N6-pyridoxyllysine could be identified in the acid hydrolysate of the enzyme. Only small amounts of this compound were present when the reduction was performed in the presence of carboxyribitol bisphosphate, an analogue of the intermediate formed during the carboxylation reaction. Therefore, it is concluded that pyridoxal phosphate modifies a lysyl residue close to or at the active site of ribulose bisphosphate carboxylase.
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Lawlis VB, McFadden BA. Modification of ribulose bisphosphate carboxylase by 2,3-butadione. Biochem Biophys Res Commun 1978; 80:580-5. [PMID: 629791 DOI: 10.1016/0006-291x(78)91608-x] [Citation(s) in RCA: 26] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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Tabita FR, Caruso P, Whitman W. Facile assay of enzymes unique to the Calvin cycle in intact cells, with special reference to ribulose 1,5-bisphosphate carboxylase. Anal Biochem 1978; 84:462-72. [PMID: 204219 DOI: 10.1016/0003-2697(78)90064-7] [Citation(s) in RCA: 59] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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Hartman FC, Norton IL, Stringer CD, Schloss JV. Attempts to apply affinity labeling techniques to ribulose bisphosphate carboxylase/oxygenase. BASIC LIFE SCIENCES 1978; 11:245-69. [PMID: 747601 DOI: 10.1007/978-1-4684-8106-8_16] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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Akazawa T, Takabe T, Asami S, Kobayashi H. Ribulose bisphosphate carboxylases from Chromatium vinosum and Rhodospirillum rubrum and their role in photosynthetic carbon assimilation. BASIC LIFE SCIENCES 1978; 11:209-26. [PMID: 106836 DOI: 10.1007/978-1-4684-8106-8_14] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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McFadden BA, Purohit K. Chemosynthetic, photosynthetic, and cyanobacterial ribulose bisphosphate carboxylase. BASIC LIFE SCIENCES 1978; 11:179-207. [PMID: 106835 DOI: 10.1007/978-1-4684-8106-8_13] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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Jensen RG, Sicher RC, Bahr JT. Regulation of ribulose 1,5-bisphosphate carboxylase in the chloroplast. BASIC LIFE SCIENCES 1978; 11:95-112. [PMID: 747613 DOI: 10.1007/978-1-4684-8106-8_7] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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Gibson JL, Tabita FR. Isolation and preliminary characterization of two forms of ribulose 1,5-bisphosphate carboxylase from Rhodopseudomonas capsulata. J Bacteriol 1977; 132:818-23. [PMID: 21872 PMCID: PMC235583 DOI: 10.1128/jb.132.3.818-823.1977] [Citation(s) in RCA: 58] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Abstract
The presence of two distinct forms of ribulose 1,5-bisphosphate carboxylase has been demonstrated in extracts of Rhodopseudomonas capsulata, similar to the form I (peak I) and form II (peak II) carboxylases previously described from R. sphaeroides (J. Gibson and F. R. Tabita, J. Biol. Chem 252:943-949, 1977). The two activities, separated by diethylaminoethyl-cellulose chromatography, were shown to be of different molecular size after assay on polyacrylamide gels. The higher-molecular-weight carboxylase from R. capsulata was designated form I-C, whereas the smaller enzyme was designated form II-C. Catalytic studies revealed significant differences between the two enzymes in response to pH and the effector 6-phosphogluconate. Immunological studies with antisera directed against the carboxylases from R. sphaeroides demonstrated antigenic differences between the two R. capsulata enzymes; cross-reactivity was observed only between R. sphaeroides anti-form II serum and the corresponding R. capsulata enzyme, form II-C.
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Characterization of antiserum directed against form II ribulose 1,5-bisphosphate carboxylase from Rhodopseudomonas sphaeroides. J Bacteriol 1977; 131:1020-2. [PMID: 70425 PMCID: PMC235564 DOI: 10.1128/jb.131.3.1020-1022.1977] [Citation(s) in RCA: 20] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Abstract
Antiserum directed against form II ribulose 1,5-bisphosphate carboxylase from Rhodopseudomonas sphaeroides showed no cross-reactivity towards the form I enzyme as evidenced by a lack of immunopreciptation. In addition, this antiserum failed to inhibit form I enzymatic activity.
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Gibson JL, Tabita FR. Different molecular forms of D-ribulose-1,5-bisphosphate carboxylase from Rhodopseudomonas sphaeroides. J Biol Chem 1977. [DOI: 10.1016/s0021-9258(19)75189-8] [Citation(s) in RCA: 53] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022] Open
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Stewart R, Auchterlonie CC, Codd GA. Studies on the subunit structure of ribulose-1,5-diphosphate carboxylase from the blue-green alga Microcystis aeruginosa. PLANTA 1977; 136:61-64. [PMID: 24420228 DOI: 10.1007/bf00387926] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/24/1977] [Accepted: 04/20/1977] [Indexed: 06/03/2023]
Abstract
Ribulose-1,5-diphosphate carboxylase (EC 4.1.1.39) has been purified from the unicellular blue-green alga Microcystis aeruginosa by ammonium sulphate precipitation, followed by linear sucrose density gradient centrifugation. The enzyme has a molecular weight of 518, 000 and contains two types of subunits (large, 50,000 and small, 14,000) as shown by sodium dodecyl sulphate polyacrylamide gel electrophoresis. The enzyme from this photosynthetic prokaryote thus appears to resemble closely the ribulose, diphosphate carboxylase of eukaryotic microalgal chloroplasts in quaternary structure.
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Affiliation(s)
- R Stewart
- Department of Biological Sciences, University of Dundee, DD1 4HN, Dundee, UK
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Genetic Control of the Content, Amino Acid Composition, and Processing Properties of Proteins in Wheat. ADVANCES IN GENETICS 1977. [DOI: 10.1016/s0065-2660(08)60249-7] [Citation(s) in RCA: 54] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
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50
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Codd GA, Stewart WDP. d-Ribulose 1,5-diphosphate carboxylase from the blue-green alga Aphanocapsa 6308. Arch Microbiol 1977. [DOI: 10.1007/bf00428589] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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