Research Topics
| R H WhiteSummaryAffiliation: Virginia Polytechnic Institute and State University Country: USA Publications
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Detail Information
Publications
Purine biosynthesis in the domain Archaea without folates or modified folatesR H White
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg 24061 0308, USA
J Bacteriol 179:3374-7. 1997..It is concluded that archaea, which function with modified folates such as MPT, are able to carry out purine biosynthesis without the involvement of folates or modified folates...
Pyruvoyl-dependent arginine decarboxylase from Methanococcus jannaschii: crystal structures of the self-cleaved and S53A proenzyme formsW David Tolbert
Department of Chemistry and Chemical Biology, Cornell University, Ithaca, NY 14853, USA
Structure 11:285-94. 2003..Glu109 is proposed to play a catalytic role in the decarboxylation reaction...- Identification of the 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase required for coenzyme F(420) biosynthesisDavid E Graham
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061 0308, USA
Arch Microbiol 180:455-64. 2003..Therefore a radical reaction mechanism is proposed for the biosynthesis of FO... - A Methanocaldococcus jannaschii archaeal signature gene encodes for a 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate synthetase. A new enzyme in purine biosynthesisKatie Ownby
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061 0308, USA
J Biol Chem 280:10881-7. 2005..jannaschii cell extracts were incubated with H13CO3- and hydrogen gas. The presence of this signature gene in all of the Archaea indicates the presence of a purine biosynthetic pathway proceeding in the absence of folate coenzymes... - L-cysteine desulfidase: an [4Fe-4S] enzyme isolated from Methanocaldococcus jannaschii that catalyzes the breakdown of L-cysteine into pyruvate, ammonia, and sulfideShih-I Tchong
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061-0308, USA
Biochemistry 44:1659-70. 2005..It is proposed that the enzyme may be responsible for the production of sulfide required for the biosynthesis of iron-sulfur centers in this archaea. A mechanism of action of the enzyme is proposed... - Purine biosynthesis in archaea: variations on a themeAnne M Brown
Department of Chemistry, Roanoke College, Salem, VA 24153, USA
Biol Direct 6:63. 2011..A careful manual curation of genes in this pathway demonstrates the value of manual curation in archaea, even in pathways that have been well-studied in other domains... - Methylglyoxal is an intermediate in the biosynthesis of 6-deoxy-5-ketofructose-1-phosphate: a precursor for aromatic amino acid biosynthesis in Methanocaldococcus jannaschiiRobert H White
Department of Biochemistry 0308, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, USA
Biochemistry 45:12366-79. 2006..This work is the first report of methylglyoxal functioning in central metabolism... - Ribose-5-phosphate biosynthesis in Methanocaldococcus jannaschii occurs in the absence of a pentose-phosphate pathwayLaura L Grochowski
Department of Biochemistry 0308, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061
J Bacteriol 187:7382-9. 2005..Additional work has demonstrated that ribulose-5-phosphate is derived by the loss of formaldehyde from D-arabino-3-hexulose-6-phosphate, catalyzed by the protein product of the MJ1447 gene... - The difficult road from sequence to functionRobert H White
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, 24061, USA
J Bacteriol 188:3431-2. 2006 - The biosynthesis of cysteine and homocysteine in Methanococcus jannaschiiRobert H White
Department of Biochemistry, Virginia Polytechnic Institute and State University, 103 Engel Hall 0308 Blacksburg, VA 24061 0308, USA
Biochim Biophys Acta 1624:46-53. 2003..These findings explain the absence of identifiable genes in the genome of this organism for the biosynthesis of cysteine and homocysteine... 
Biochemical origins of lactaldehyde and hydroxyacetone in Methanocaldococcus jannaschiiRobert H White
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, USA
Biochemistry 47:5037-46. 2008..Hydroxyacetone was also readily formed by the condensation of pyruvate with formaldehyde. The product of the MJ0663 gene was shown to catalyze this condensation reaction...- Identification, source, and metabolism of N-ethylglutamate in Escherichia coliRobert H White
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, USA
J Bacteriol 192:5437-40. 2010..NEG could serve as the sole nitrogen source for E. coli when grown on M9 glucose medium in the presence of glucose but could not serve as the sole carbon source on M9 medium in the absence of glucose... - The conversion of a phenol to an aniline occurs in the biochemical formation of the 1-(4-aminophenyl)-1-deoxy-D-ribitol moiety in methanopterinRobert H White
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061 0308, USA
Biochemistry 50:6041-52. 2011..H. (1996) Biochemistry 35, 3447-3456]. This work represents the first biochemical example of the conversion of a phenol to an aniline... - Methanopterin biosynthesis: methylation of the biosynthetic intermediatesR H White
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061 0308, USA
Biochim Biophys Acta 1380:257-67. 1998..In this work, cell extracts of M. thermoautotrophicum strain DeltaH, and M. thermoautotrophicum strain Marburg were found to contain significant amounts of methanopterin lacking the phosphate and 2-hydroxyglutaric acid groups... - L-Aspartate semialdehyde and a 6-deoxy-5-ketohexose 1-phosphate are the precursors to the aromatic amino acids in Methanocaldococcus jannaschiiRobert H White
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061 0308, USA
Biochemistry 43:7618-27. 2004..The DHQ is readily converted into dehydroshikimate and shikimate in M. jannaschii cell extracts, consistent with the remaining steps and genes in the pathway being the same as in the established shikimate pathway... - Identification of the gene encoding sulfopyruvate decarboxylase, an enzyme involved in biosynthesis of coenzyme MM Graupner
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061 0308, USA
J Bacteriol 182:4862-7. 2000..The two subunits, designated ComD and ComE, comprise the first enzyme for the biosynthesis of coenzyme M to be described... - Identification of coenzyme M biosynthetic 2-phosphosulfolactate phosphatase. A member of a new class of Mg(2+)-dependent acid phosphatasesD E Graham
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061, USA
Eur J Biochem 268:5176-88. 2001..The broad and disparate distribution of comB homologs suggests that the gene has been recruited frequently into new metabolic pathways... - Alpha-keto acid chain elongation reactions involved in the biosynthesis of coenzyme B (7-mercaptoheptanoyl threonine phosphate) in methanogenic ArchaeaD M Howell
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg 24061 0308, USA
Biochemistry 37:10108-17. 1998..Of the 13 intermediates in this pathway, eight have not previously been reported as occurring in biological systems... - Identification of enzymes homologous to isocitrate dehydrogenase that are involved in coenzyme B and leucine biosynthesis in methanoarchaeaD M Howell
Department of Biochemistry 0308, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, USA
J Bacteriol 182:5013-6. 2000..The AksF enzyme proved to be thermostable, losing only 10% of its enzymatic activity after heating at 100 degrees C for 10 min, whereas the LeuB enzyme lost 50% of its enzymatic activity after heating at 80 degrees C for 10 min... - A novel biosynthesis of medium chain length alpha-ketodicarboxylic acids in methanogenic archaebacteriaR H White
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg 24061
Arch Biochem Biophys 270:691-7. 1989.... - Biosynthesis of the methanogenic cofactorsR H White
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, USA
Vitam Horm 61:299-337. 2001..Proposed reaction mechanisms for several of the novel reactions involved in the pathways are presented... - Identification of lactaldehyde dehydrogenase in Methanocaldococcus jannaschii and its involvement in production of lactate for F420 biosynthesisLaura L Grochowski
Department of Biochemistry 0308, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061, USA
J Bacteriol 188:2836-44. 2006..The lactaldehyde, in turn, was found to be generated either by the NAD(P)H reduction of methylglyoxal or by the aldol cleavage of fuculose-1-phosphate by fuculose-1-phosphate aldolase, the MJ1418 gene product... - Biosynthesis of the phosphodiester bond in coenzyme F(420) in the methanoarchaeaM Graupner
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061-0308, USA
Biochemistry 40:10859-72. 2001.... - The first examples of (S)-2-hydroxyacid dehydrogenases catalyzing the transfer of the pro-4S hydrogen of NADH are found in the archaeaM Graupner
Department of Biochemistry (0308, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061, USA
Biochim Biophys Acta 1548:169-73. 2001.... - Reductive dehalogenation of monobromobimane by tris(2-carboxyethyl)phosphineDavid E Graham
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061-0308, USA
Anal Biochem 318:325-8. 2003 - Methanococcus jannaschii generates L-proline by cyclization of L-ornithineM Graupner
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061-0308, USA
J Bacteriol 183:5203-5. 2001..1.12). Since no gene homologous to that coding for ornithine cyclodeaminase is present in the genome of M. jannaschii, these results indicate that proline biosynthesis in M. jannaschii is accomplished by a previously unrecognized enzyme... - Identification and characterization of an archaeon-specific riboflavin kinaseZahra Mashhadi
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061, USA
J Bacteriol 190:2615-8. 2008..Some divalent metals were found to be potent inhibitors of the reaction. The enzyme represents a unique CTP-dependent family of kinases... - Identification and characterization of the 2-phospho-L-lactate guanylyltransferase involved in coenzyme F420 biosynthesisLaura L Grochowski
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061 0308, USA
Biochemistry 47:3033-7. 2008..The MJ0887 gene product has been designated CofC to indicate its involvement in the third step of coenzyme F 420 biosynthesis... - CofE catalyzes the addition of two glutamates to F420-0 in F420 coenzyme biosynthesis in Methanococcus jannaschiiHong Li
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061 0308, USA
Biochemistry 42:9771-8. 2003..Evidence for the occurrence of this intermediate is presented. A reaction mechanism for the enzyme is proposed and compared with other members of the ADP-forming amide bond ligase family... - The pyrimidine nucleotide reductase step in riboflavin and F(420) biosynthesis in archaea proceeds by the eukaryotic route to riboflavinMarion Graupner
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061-0308, USA
J Bacteriol 184:1952-7. 2002..jannaschii and Methanosarcina thermophila. Thus, this step in riboflavin biosynthesis in these archaea is the same as that found in yeasts. The absence of the other genes in the biosynthesis of riboflavin in Archaea is discussed... - Identification of an archaeal 2-hydroxy acid dehydrogenase catalyzing reactions involved in coenzyme biosynthesis in methanoarchaeaM Graupner
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, USA
J Bacteriol 182:3688-92. 2000..We conclude that the MJ1425-encoded enzyme is likely to be involved in the biosynthesis of both coenzyme M and methanopterin... - (R)-citramalate synthase in methanogenic archaeaD M Howell
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061 0308, USA
J Bacteriol 181:331-3. 1999..Thus, this gene (cimA) encodes an (R)-citramalate synthase (CimA). This is the first identification of this enzyme, which is likely involved in the biosynthesis of isoleucine... - Glutathione synthetase homologs encode alpha-L-glutamate ligases for methanogenic coenzyme F420 and tetrahydrosarcinapterin biosynthesesHong Li
Department of Biochemistry 0308, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061, USA
Proc Natl Acad Sci U S A 100:9785-90. 2003..The analogous pathways for glutathione, F420, folate, and murein peptide biosyntheses illustrate convergent evolution of nonribosomal peptide biosynthesis through the recruitment of single-step amino acid ligases... - Characterization of an Fe(2+)-dependent archaeal-specific GTP cyclohydrolase, MptA, from Methanocaldococcus jannaschiiLaura L Grochowski
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, USA
Biochemistry 46:6658-67. 2007..MptA was found to require Fe2+ for activity. Mutation of conserved histidine residues H200N, H293N, and H295N, expected to be involved in Fe2+ binding, resulted in reduced enzymatic activity but no reduction in the amount of bound iron... - An iron(II) dependent formamide hydrolase catalyzes the second step in the archaeal biosynthetic pathway to riboflavin and 7,8-didemethyl-8-hydroxy-5-deazariboflavinLaura L Grochowski
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061 0308, USA
Biochemistry 48:4181-8. 2009..The identification of this enzyme confirms the involvement of GTP cyclohydrolase III (ArfA) in archaeal riboflavin and Fo biosynthesis... - Characterization of the 2-phospho-L-lactate transferase enzyme involved in coenzyme F(420) biosynthesis in Methanococcus jannaschiiMarion Graupner
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, USA
Biochemistry 41:3754-61. 2002..All of these side reactions can be rationalized as occurring by a common mechanism. CofD has no recognized sequence similarity to any previously characterized enzyme... - New class of IMP cyclohydrolases in Methanococcus jannaschiiMarion Graupner
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061 0308, USA
J Bacteriol 184:1471-3. 2002..The enzyme has no sequence similarity to known enzymes, and its catalytic properties appear distinct from any characterized IMP cyclohydrolase. The purO gene for the enzyme is currently found only in the domain Archaea... - Elucidation of methanogenic coenzyme biosyntheses: from spectroscopy to genomicsDavid E Graham
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg 24061-0308, USA
Nat Prod Rep 19:133-47. 2002..The literature from 1971 to September 2001 is reviewed, and 169 references are cited... - Identification and characterization of a L-tyrosine decarboxylase in Methanocaldococcus jannaschiiNicole D Kezmarsky
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061 0308, USA
Biochim Biophys Acta 1722:175-82. 2005..Homologs of this gene are widely distributed among euryarchaea but are not specifically related to known bacterial or plant tyrosine decarboxylases... - A divergent archaeal member of the alkaline phosphatase binuclear metalloenzyme superfamily has phosphoglycerate mutase activityDavid E Graham
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061 0308, USA
FEBS Lett 517:190-4. 2002..We show that the genes at M. jannaschii loci MJ0010 and MJ1612 encode thermostable enzymes with phosphoglycerate mutase activity. Phylogenetic analyses suggest that this gene family arose before the divergence of the archaeal lineage... - A member of a new class of GTP cyclohydrolases produces formylaminopyrimidine nucleotide monophosphatesDavid E Graham
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg 24061 0308, USA
Biochemistry 41:15074-84. 2002..The effects of substrate analogues and inhibitors suggest that the GTP cyclohydrolase and pyrophosphate phosphohydrolase activities occur at independent sites, although both activities depend on Mg(2+)... - An Fe2+-dependent cyclic phosphodiesterase catalyzes the hydrolysis of 7,8-dihydro-D-neopterin 2',3'-cyclic phosphate in methanopterin biosynthesisZahra Mashhadi
Department of Biochemistry 0308, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, USA
Biochemistry 48:9384-92. 2009..0 mol of zinc and 0.8 mol of iron per protomer. MptB requires Fe(2+) for activity, the same as observed for MptA. Thus the first two enzymes involved in H(4)MPT biosynthesis in the archaea are Fe(2+) dependent... - The structural determination of phosphosulfolactate synthase from Methanococcus jannaschii at 1.7-A resolution: an enolase that is not an enolaseEric L Wise
Department of Biochemistry, University of Wisconsin, Madison, Wisconsin 53706, USA
J Biol Chem 278:45858-63. 2003.... - Methanococcus jannaschii coenzyme F420 analogs contain a terminal alpha-linked glutamateMarion Graupner
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, USA
J Bacteriol 185:4662-5. 2003..Analyses of Methanosarcina thermophila, Methanosarcina barkeri, Methanobacterium thermoautotrophicum, Archaeoglobus fulgidus, and Mycobacterium smegmatis showed that they contained only gamma-glutamyl-linked F(420)s... - Methanococcus jannaschii uses a pyruvoyl-dependent arginine decarboxylase in polyamine biosynthesisDavid E Graham
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061 0308, USA
J Biol Chem 277:23500-7. 2002..Phylogenetic analysis of Pvl- ArgDC proteins suggests that this gene has been recruited from the euryarchaeal polyamine biosynthetic pathway to function as a degradative enzyme in bacteria... - Identification of coenzyme M biosynthetic phosphosulfolactate synthase: a new family of sulfonate-biosynthesizing enzymesDavid E Graham
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061 0308, USA
J Biol Chem 277:13421-9. 2002..A diverse group of microbes and plants have homologs of ComA that could have been recruited for sulfolactate or sulfolipid biosyntheses... - Methanocaldococcus jannaschii uses a modified mevalonate pathway for biosynthesis of isopentenyl diphosphateLaura L Grochowski
Department of Biochemistry 0308, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, USA
J Bacteriol 188:3192-8. 2006..Unlike other known kinases associated with isoprene biosynthesis, Methanocaldococcus jannaschii isopentenyl phosphate kinase is predicted to be a member of the aspartokinase superfamily... - The Methanococcus jannaschii dCTP deaminase is a bifunctional deaminase and diphosphataseHong Li
Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061 0308, USA
J Biol Chem 278:11100-6. 2003..The bifunctional activity of this M. jannaschii enzyme illustrates the evolution of a suprafamily of related enzymes that catalyze mechanistically distinct reactions... - Biochemical and genetic characterization of an early step in a novel pathway for the biosynthesis of aromatic amino acids and p-aminobenzoic acid in the archaeon Methanococcus maripaludisIris Porat
Department of Microbiology, University of Georgia, Athens, GA 30602, USA
Mol Microbiol 62:1117-31. 2006..Presumably, methanococci contain an alternative activity for this step. These results identify the initial reactions of a new pathway for the biosynthesis of PABA in methanococci... - Structure of 2-amino-3,7-dideoxy-D-threo-hept-6-ulosonic acid synthase, a catalyst in the archaeal pathway for the biosynthesis of aromatic amino acidsMariya Morar
Department of Chemistry and Chemical Biology, Cornell University, Ithaca, New York 14853, USA
Biochemistry 46:10562-71. 2007.... - Molecular insights into the biosynthesis of the F420 coenzymeFarhad Forouhar
Department of Biological Sciences, Northeast Structural Genomics Consortium, Columbia University, New York, New York 10027, USA
J Biol Chem 283:11832-40. 2008..Large structural differences in the active site region of the non-F(420)-producing CofD homologs suggest that they catalyze a different biochemical reaction... - The genome of M. acetivorans reveals extensive metabolic and physiological diversityJames E Galagan
Whitehead Institute Center for Genome Research, Cambridge, Massachusetts 02141, USA
Genome Res 12:532-42. 2002..acetivorans a powerful model organism for the study of archaeal biology. [Sequence, data, annotations and analyses are available at http://www-genome.wi.mit.edu/.].. - Crystal structure and function of 5-formaminoimidazole-4-carboxamide ribonucleotide synthetase from Methanocaldococcus jannaschiiYang Zhang
Department of Chemistry and Chemical Biology, Cornell University, Ithaca, New York 14853 1301, USA
Biochemistry 47:205-17. 2008..With approximately 50% sequence identity, P. furiosus PurP is structurally homologous to M. jannaschii PurP. A phylogenetic analysis was performed to explore the possible role of this functionally unclassified PurP... - Structural basis for recognition and catalysis by the bifunctional dCTP deaminase and dUTPase from Methanococcus jannaschiiJoy L Huffman
Department of Molecular Biology, The Scripps Research Institute, The Skaggs Institute for Chemical Biology, 10550 North Torrey Pines Road, La Jolla, CA 92037 1027, USA
J Mol Biol 331:885-96. 2003..These first structures of a dCTP deaminase reveal a probable role for an unstructured C-terminal region different from that of the dUTPases and possible mechanisms for both bifunctional enzyme activity and feedback inhibition by dTTP...