Publications

2011-2012

E.S. Boyd, T.L. Hamilton, and J. W. Peters “An alternative path for the evolution of biological nitrogen fixation” Science – Submitted (2011)

M.A. Kofoed, D.A. Wampler, A.S. Pandey, J.W. Peters, and S.A. Ensign “Roles of the redox active disulfide, and histidine residues forming a catalytic dyad, in reactions catalyzed by 2-Ketopropyl-Coenzyme M Oxidoreductase/Carboxylase” J. Bacteriol. – Submitted (2011)

A.J. Cornish, G. Hong, K. Gaertner, H. Yang, J.W. Peters, R. Pachter, E.L. Hegg “The mechanism of proton transfer in [FeFe]-Hydrogenase from Clostridium pasteurianum” J. Biol. Chem. – Submitted (2011)

T.L. Hamilton, K. Vogl, D.A. Bryant, E.S. Boyd, and J.W. Peters “Environmental constraints defining the distribution, composition, and evolution of chlorophototrophs in thermal features of Yellowstone National Park” Geobiology – Submitted (2011)

T.L. Hamilton, M.R. Jacobson, M. Ludwig, E.S. Boyd, D.A. Bryant, D.R. Dean, and J.W. Peters “Segmented accumulation of nif structural gene mRNA in Azotobacter vinelandii” J. Bacteriol. – Submitted (2011)

T.L. Hamilton, M. Ludwig, R.A. Dixon, E.S. Boyd, P.C. Dos Santos, J.C. Sebutal, D.A. Bryant, D.R. Dean, and J.W. Peters “Transcriptional profiling of nitrogen fixation in Azotobacter vinelandii” J. Bacteriol. – Submitted (2011)

D.W. Mulder, E.M. Shepard, J.E. Meuser, N. Joshi, P.W. King, M.C. Posewitz, J.B. Broderick, and J.W. Peters “Structural Insights into [FeFe]-Hydrogenase Maturation” Structure – Accepted (2011)

O.A. Zadvornyy, J.E. Lucon, R. Gerlach, N.A. Zorin, T. Douglas, T.E. Elgren, and J.W. Peters “Photoinduced H2 production by stable [NiFe]-hydrogenases from T. roseopersicina covalently linked to a Ru(II) photosensitizer” J. Inorg. Biochem. - Revision Requested (2011)

E.S. Boyd, R.K. Lange, A.C. Mitchell, J.R. Havig, T.L. Hamilton, E.L. Shock, J.W. Peters, and M. Skidmore “Diversity, abundance, and potential activity of nitrifying and denitrifying microbial assemblages in a subglacial ecosystem" Appl. Environ. Microbiol. - Accepted (2011)

J.E. Meuser, E.S. Boyd, G. Ananyev, D. Karns, R. Radakovits, U.M.N. Murthy, M.L. Ghirardi, G.C. Dismukes, J.W. Peters, M.C. Posewitz “Presence of accessory FeS clusters in the Chlorella variabilis NC64A [FeFe]-hydrogenases: new insights into the evolution and diversity of algal hydrogen metabolism” Planta - Accepted (2011)

E.S. Boyd, A.D. Anbar, S. Miller, T.L. Hamilton, M. Lavin, and J.W. Peters “A late methanogen origin for molybdenum-dependent nitrogenase” Geobiology 9:221-232 (2011) – highlighted in Science as Editor’s Choice

T.L. Hamilton, R.K. Lange, E.S. Boyd, and J.W. Peters “Biological nitrogen fixation in acidic high temperature geothermal springs in Yellowstone National Park, Wyoming” Environ. Microbiol. Available as Epub ahead of print - doi: 10.1111/j.1462-2920.2011.02475 (2011)

E.M. Shepard, E.S. Boyd, J.B. Broderick, and J.W. Peters “Biosynthesis of complex iron-sulfur enzymes” Curr. Opin. Struct. Biol. 15:319-327 (2011)

J.W. Peters, L.M. Rubio “Biochemistry of Mo-nitrogenase” in The Molecular Basis of the Nitrogen Cycle (ed. J. Moir) Horizon Scientific Press In press (2011)

D.W. Mulder and J.W. Peters “Nucleotide-dependent conformational change and complex interactions in nitrogenase” in Methods in Nitrogen Fixation (ed. by M.W. Ribbe) Springer/Humana Press In press (2011)

J.W. Peters, E.S. Boyd, S. D’Adamo, D.W. Mulder, J. Therien, and M.C. Posewitz “Hydrogenases, nitrogenases, anoxia, and H2 production in water-oxidizing phototrophs” in Algae for Biofuels and Energy(ed.M.A. Borowitzka) Springer/Humana Press In press (2011)

T.L. Hamilton, E.S. Boyd, and J.W. Peters “Geochemical controls on the phylogenetic structure and composition of NifH in Yellowstone National Park” Microbial. Ecol. – Available as Epub ahead of print (2011)

K.D. Swanson, B.R. Duffus, T.E. Beard, J.W. Peters, and J.B. Broderick “Cyanide and carbon monoxide ligand formation in hydrogenase biosynthesis” Epub ahead of print DOI: 10.1002/ejic.201001056 (2011) – included inside cover art.

J.M. Boyd, J.A. Endrizzi, T.L. Hamilton, D.M. Downs, and J.W. Peters “FAD binding by ApbE protein from Salmonella enterica: a new class of flavoproteins” J. Bacteriol. 193:887-895 (2011)

D.W. Mulder, A.S. Pandey, S.A. Ensign, and J.W. Peters “Carbon dioxide binding and redox dependent substrate activation at the active site of 2-ketopropyl coenzyme M oxidoreductase/carboxylase” FEBS Lett. 585:459-464 (2011)

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2009-2010

I.I. Brown, D.A. Bryant, D. Casamatta, K.L. Thomas-Keprta, S.A. Sarkisova, G. Shen, J.E. Graham, E.S. Boyd, J.W. Peters, D.H. Garrison, and D.S. McKay “Polyphasic characterization of a thermotolerant siderophilic filamentous cyanobacterium that produces intracellular iron deposits” Appl. Environ. Microbiol. 76:6664-6672 (2010)

D.A. Sliwa, A.M. Krishnakumar, J.W. Peters, and S.A. Ensign “Molecular basis for enantioselectivity in the (R)- and (S) hydroxypropylthioethanesulfonate dehydrogenases, a unique pair of stereoselective short-chain dehydrogenases/reductases involved in aliphatic epoxide carboxylation” Biochemistry 49:248-251 (2010)

Zadvornyy, O; Barrows, AM; Zorin, NA; Peters, JW; Elgren, TE. High level of hydrogen production activity achieved for hydrogenase encapsulated in sol–gel material doped with carbon nanotubes. ***J. Mater. Chem.*, 2010; 20**: 1065–1067.

Shepard, EM; Duffus, BR; George, SJ; McGlynn, SE; Challand, MR; Swanson, KD; Roach, PL; Cramer, SP; Peters, JW; Broderick, JB. [FeFe]-Hydrogenase Maturation: HydG-Catalyzed Synthesis of Carbon Monoxide. J. Am. Chem. Soc. 2010; 132: 9247-9249.

Boyd, ES; Hamilton, TL; Spear, JR; Lavin, M; Peters, JW. [FeFe]-hydrogenase in Yellowstone National Park: evidence for dispersal limitation and phylogenetic niche conservatism. ISME J. 2010; 4: 1485-1495.

Shepard, EM; McGlynn, SE; Bueling, AL; Grady-Smith, CS; George, SJ; Winslow, MA; Cramer, SP; Peters, JW; Broderick, JB. Synthesis of the 2Fe subcluster of the [FeFe]-hydrogenase H cluster on the HydF scaffold. Proc. Natl. Acad. Sci. USA 2010; 107: 10448-10453.

Mulder, DW; Boyd, ES; Sarma, R; Lange, RK; Endrizzi, JA; Broderick, JB; Peters, JW. Stepwise [FeFe]-hydrogenase H-cluster assembly revealed in the structure of HydA(DeltaEFG). Nature 2010; 465: 248-251.

Sliwa, DA; Krishnakumar, AM; Peters, JW; Ensign, SA. Molecular basis for enantioselectivity in the (R)- and (S)-hydroxypropylthioethanesulfonate dehydrogenases, a unique pair of stereoselective short-chain dehydrogenases/reductases involved in aliphatic epoxide carboxylation. Biochemistry 2010; 49: 3487-3498.

Soboh, B; Boyd, ES; Zhao, D; Peters, JW; Rubio, LM. Substrate specificity and evolutionary implications of a NifDK enzyme carrying NifB-co at its active site. FEBS Lett. 2010; 584: 1487-1492.

Driesener, RC; Challand, MR; McGlynn, SE; Shepard, EM; Boyd, ES; Broderick, JB; Peters, JW; Roach, PL. [FeFe]-hydrogenase cyanide ligands derived from S-adenosylmethionine-dependent cleavage of tyrosine. Angew. Chem. Int. Ed. Engl. 2010; 49: 1687-1690.

Sarma, R; Barney, BM; Keable, S; Dean, DR; Seefeldt, LC; Peters, JW. Insights into substrate binding at FeMo-cofactor in nitrogenase from the structure of an alpha-70(Ile) MoFe protein variant. J. Inorg. Biochem. 2010; 104: 385-389.

Zadvornyy, OA; Allen, M; Brumfield, SK; Varpness, Z; Boyd, ES; Zorin, NA; Serebriakova, L; Douglas, T; Peters, JW. Hydrogen enhances nickel tolerance in the purple sulfur bacterium Thiocapsa roseopersicina. Environ. Sci. Technol. 2010; 44: 834-840.

McGlynn, SE; Boyd, ES; Shepard, EM; Lange, RK; Gerlach, R; Broderick, JB; Peters, JW. Identification and characterization of a novel member of the radical AdoMet enzyme superfamily and implications for the biosynthesis of the Hmd hydrogenase active site cofactor. J. Bacteriol. 2010; 192: 595-598.

Beer, LL; Boyd, ES; Peters, JW; Posewitz, MC. Engineering algae for biohydroen and biofuel production. Curr. Opin. Biotechnol. 2009; 20: 264-271.

Mulder, DW; Ortillo, DO; Gardenghi, DJ; Naumov, AV; Ruebush, SS; Szilagyi, RK; Huynh B; Broderick, JB; Peters, JW. Activation of HydA^∆EFG requires a preformed [4Fe-4S] cluster. Biochemistry 2009; 48: 6240-6248.

Boyd, ES; Spear, JR; Peters, JW. [FeFe] hydrogenase genetic diversity provides insight into molecular adaption in a saline microbial mat community. Appl. Environ. Microbiol. 2009; 75: 4620-4623.

Mcglynn, SE; Mulder, DW; Shepard, SE; Broderick, JB; Peters, JW. Hydrogenase cluster biosynthesis: organometallic chemisty nature's way. Dalton Trans. 2009; 4274-4285.

Peters, JW. Carbon monoxide and cyanide lignads in the active site of [FeFe]-hydrogeanse. In Metal ions in life sciences. Sigel, A; Sigel, H; Sigel, RKO; Eds. RSC Pub: 2009; 6, 179-218.

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2006-2008

Sarma, R; Barney, BM; Hamilton, TL; Jones, A; Seefeldt, LC; Peters, JW. Crystal structure of the L protein of Rhodobacter sphaeroides light-independent protochlorophyllide reductase with MgADP bound: a homologue of the nitrogenase Fe protein. Biochemistry 2008; 47: 13004-13015.

Krishnakumar, AM; Sliwa, D; Endrizzi, JA; Boyd, ES; Ensign, SA; Peters, JW. Getting a handle on the role of coenzyme M in alkene metabolism. Microbiol. Mol. Biol. Rev.; 72: 445-456.

Posewitz, MC; Mulder, DW; Peters, JW. New Frontiers in Hydrogenase Structure and Biosynthesis. Current Chemical Biology 2008; 2: 178-199.

McGlynn, SE; Shepard, EM; Winslow, MA; Naumov, AV; Duschene, KS; Posewitz, MC; Broderick, WE; Broderick, WE; Broderick, JB; Peters, JW. HydF as a scaffold protein in [FeFe] hydrogenase H-cluster biosynthesis. FEBS Lett. 2008; 582: 2183-2187.

Pandey, AS; Harris, TV; Giles, LJ; Peters, JW; Szilagyi, RK. Dithiomethylether as a ligand in the hydrogenase h-cluster. J. Am. Chem. Soc. 2008; 130: 4533-4540.

Sarma R; Mulder, DW; Brecht, E; Szilagy, RK; Seefeldt, LC; Tsuruta, H; Peters, JW. Probing the MgATP-bound conformation of the nitrogenase Fe protein by solution small-angle X-ray scattering. Biochemistry 2007; 46: 14058-14066.

Peters, JW; Bothner, B; Kelly, S. Unfolding the mystery of protein stability. Yellowstone Sci 2007.

McGlynn, SE; Ruebush, SS; Naumov, A; Nagy, LE; Dubini, A; King, PW; Broderick, JB; Posewitz, MC; Peters, JW. In vitro activation of [FeFe] hydrogenase: new insights into hydrogenase maturation. J. Biol. Inorg. Chem. 2007; 12: 443-447.

Sen, S; Peters, JW. The thermal adaptation of the nitrogenase Fe protein from thermophilic Methanobacter thermoautotrophicus. Proteins 2006; 62: 450-460.

Peters, JW; Szilagyi, RK; Naumov, A; Douglas, T,. A radical solution for the biosynthesis of the H-cluster of hydrogenase. FEBS Lett. 2006; 580: 363-367.

Pandey, AS; Nocek, B; Clark, DD; Ensign, SA; Peters, JW. Mechanistic implications of the structure of the mixed-disulfide intermediate of the disulfide oxidoreductase, 2-ketopropyl-coenzyme M oxidoreductase/carboxylase. Biochemistry 2006; 45: 113-120.

Steunou, AS; Bhaya, D; Bateson, MM; Melendrez, MC; Ward, DM; Brecht, E; Peters, JW; Kuhl, M; Grossman, AR. In situ analysis of nitrogen fixation and metabolic switching in unicellular thermophilic cyanobacteria inhabiting hot spring microbial mats. Proc. Natl. Acad. Sci. USA 2006; 103: 2398-2403.

Peters, JW; Szilagyi, RK. Exploring new frontiers of nitrogenase structure and mechanism. Curr. Opin. Chem. Biol. 2006; 10: 101-108.

Sen, S; Krishnakumar, A; McClead, J; Johnson, MK; Seefeldt, LC; Szilagyi, RK;

Peters, JW. Insights into the role of nucleotide-dependent conformational change in nitrogenase catalysis: Structural characterization of the nitrogenase Fe protein Leu127 deletion variant with bound MgATP. J. Inorg. Biochem. 2006; 100: 1041-1052.

Krishnakumar, AM; Nocek, BP; Clark, DD; Ensign, SA; Peters, JW. Structural basis for stereoselectivity in the (R)- and (S)-hydroxypropylthioethanesulfonate dehydrogenases. Biochemistry 2006; 45: 8831-8840.

Schwab, DE; Tard, C; Brecht, E; Peters, JW; Pickett, CJ; Szilagyi, RK. On the electronic structure of the hydrogenase H-cluster. Chem. Commun. 2006: 3696-3698.

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2004-2005

Sen, S; Peters, JW. The role of MgATP in nitrogenase catalysis In Proceedings of the 14th International Nitrogen Fixation Congress, 2005.

Copik, AJ; Nocek, BP; Swierczek, SI; Ruebush, S; Jang, SB; Meng, L; D'Souza V, M; Peters, JW; Bennett, B; Holz, RC. EPR and X-ray crystallographic characterization of the product-bound form of the MnII-loaded methionyl aminopeptidase from Pyrococcus furiosus. Biochemistry 2005; 44: 121-129.

Girbal, L; von Abendroth, G; Winkler, M; Benton, PM; Meynial-Salles, I; Croux, C; Peters, JW; Happe, T; Soucaille, P. Homologous and heterologous overexpression in Clostridium acetobutylicum and characterization of purified clostridial and algal Fe-only hydrogenases with high specific activities. Appl. Environ. Microbiol. 2005; 71: 2777-27781.

Elgren, TE; Zadvorny, OA; Brecht, E; Douglas, T; Zorin, NA; Maroney, MJ; Peters, JW. Immobilization of active hydrogenases by encapsulation in polymeric porous gels. Nano Lett. 2005; 5: 2085-2087.

Varpness, Z; Peters, JW; Young, M; Douglas, T. Biomimetic synthesis of a H2 catalyst using a protein cage architecture. Nano Lett. 2005; 5: 2306-2309.

Benton, PMC; Peters, JW. Nitrogenase structures. In Nitrogen Fixation, Smith, B. E.; Richards, R., Eds. Kluwer: 2004; pp 77-96.

Nocek, B; Boyd, J; Ensign, SA; Peters, JW. Crystallization and preliminary X-ray analysis of an acetone carboxylase from Xanthobacter autotrophicus strain Py2. Acta Crystallogr. D. Biol. Crystallogr. 2004; 60: 385-387.

Sen, S; Igarashi, R; Smith, A; Johnson, MK; Seefeldt, LC; Peters, JW. A

conformational mimic of the MgATP-bound "on state" of the nitrogenase iron protein. Biochemistry 2004; 43: 1787-1797.

Jang, SB; Jeong, MS; Seefeldt, LC; Peters, JW. Structural and biochemical implications of single amino acid substitutions in the nucleotide-dependent switch regions of the nitrogenase Fe protein from Azotobacter vinelandii. J. Biol. Inorg. Chem. 2004; 9: 1028-1033.

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2002-2003

Swierczek, K; Peters, JW; Hengge, AC. A convenient synthesis of phosphonothioic acids. Tetrahedron 2003; 59: 595-599.

Drennan, CL; Peters, JW. Surprising cofactors in metalloenzymes. Curr. Opin. Struct. Biol. 2003; 13: 220-226.

Swierczek, K; Pandey, AS; Peters, JW; Hengge, AC. A comparison of phosphonothioic acids with phosphonic acids as phosphatase inhibitors. J. Med. Chem. 2003; 46: 3703-3708.

Benton, PMC; Peters, JW. Nitrogenase structures. In Nitrogen Fixation at the Millenium, Leigh, G. L., Ed. Elsevier: 2002.

Peters, JW. A trio of transition metals in anaerobic CO2 fixation. Science 2002; 298: 552-553.

Chen, Z; Lemon, BJ; Huang, S; Swartz, DJ; Peters, JW; Bagley, KA. Infrared studies of the CO-inhibited form of the Fe-only hydrogenase from Clostridium pasteurianum I: examination of its light sensitivity at cryogenic temperatures. Biochemistry 2002; 41: 2036-2043.

Nocek, B; Clark, DD; Ensign, SA; Peters, JW. Crystallization and preliminary X-ray analysis of an R-2-hydroxypropyl-coenzyme M dehydrogenase. Acta Crystallogr. D. Biol. Crystallogr. 2002; 58: 1470-1473.

Nocek, B; Jang, SB; Jeong, MS; Clark, DD; Ensign, SA; Peters, JW. Structural basis for CO2 fixation by a novel member of the disulfide oxidoreductase family of enzymes, 2-ketopropyl-coenzyme M oxidoreductase/carboxylase. Biochemistry 2002; 41: 12907-12913.

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2000-2001

Lemon, BJ; Peters, JW. Fe-only hydrogenases. In Handbook of Metalloproteins, Messerschmidt, A.; Huber, R.; Poulos, T.; Weighardt, K., Eds. 2001

pp 738-750.

Chiu, H; Peters, JW; Lanzilotta, WN; Ryle, MJ; Seefeldt, LC; Howard, JB; Rees, DC. MgATP-Bound and nucleotide-free structures of a nitrogenase protein complex between the Leu 127 Delta-Fe-protein and the MoFe-protein. Biochemistry 2001; 40: 641-650.

Jang, SB; Jeong, MS; Clark, DD; Ensign, SA; Peters, JW. Crystallization and preliminary X-ray analysis of a NADPH 2-ketopropyl-coenzyme M oxidoreductase/carboxylase. Acta Crystallogr. D. Biol. Crystallogr. 2001; 57: 445-447.

Sorlie, M; Christiansen, J; Lemon, BJ; Peters, JW; Dean, DR; Hales, BJ. Mechanistic features and structure of the nitrogenase alpha-Gln195 MoFe protein. Biochemistry 2001; 40: 1540-1549.

Jang, SB; Seefeldt, LC; Peters, JW. Modulating the midpoint potential of the [4Fe-4S] cluster of the nitrogenase Fe protein. Biochemistry 2000; 39: 641-648.

Nicolet, Y; Lemon, BJ; Fontecilla-Camps, JC; Peters, JW. A novel FeS cluster in Fe-only hydrogenases. Trends Biochem. Sci. 2000; 25: 138-143.

Bennett, B; Lemon, BJ; Peters, JW. Reversible carbon monoxide binding and inhibition at the active site of the Fe-only hydrogenase. Biochemistry 2000; 39: 7455-7460.

Jang, SB; Seefeldt, LC; Peters, JW. Insights into nucleotide signal transduction in nitrogenase: structure of an iron protein with MgADP bound. Biochemistry 2000; 39: 14745-14752.

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1996-1999

Peters, JW; Bellamy, HD. Extension of Fe MAD phases in the structure determination of a multiple [FeS] cluster containing hydrogenase. J. Appl. Crystallogr. 1999; 32: 1180-1182.

Lemon, BJ; Peters, JW. Binding of exogenously added carbon monoxide at the active site of the iron-only hydrogenase (CpI) from Clostridium pasteurianum. Biochemistry 1999; 38: 12969-12973.

Peters, JW. Structure and mechanism of iron-only hydrogenases. Curr. Opin. Struct. Biol. 1999; 9: 670-676.

Peters, JW; Lanzilotta, WN; Lemon, BJ; Seefeldt, LC. X-ray crystal structure of the Fe-only hydrogenase (CpI) from Clostridium pasteurianum to 1.8 angstrom resolution. Science 1998; 282: 1853-1858.

Peters, JW; Stowell, MH; Soltis, SM; Finnegan, MG; Johnson, MK; Rees, DC. Redox-dependent structural changes in the nitrogenase P-cluster. Biochemistry 1997; 36: 1181-1187.

Peters, JW. A brief overview of nitrogenase structure and function. Life Support and Biosphere Science 1996; 3: 175-181.

Stowell, MHB; Soltis, SM; Kisker, C; Peters, JW; Schindelin, H; Rees, DC; Cascio, D; Beamer, L; Hart, PJ; Wiener, MC; Whitby, FG. A simple device for studying macromolecular crystals under moderate gas pressures (0.1-10 MPa). J. Appl. Crystallogr. 1996; 29: 608-613.

Peters, JW; Stowell, MH; Rees, DC. A leucine-rich repeat variant with a novel repetitive protein structural motif. Nat. Struct. Biol. 1996; 3: 991-994.

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1991-1995

Peters, JW; Fisher, K; Dean, DR. Nitrogenase structure and function: a biochemical-genetic perspective. Annu. Rev. Microbiol 1995; 49: 335-366.

Peters, JW; Fisher, K; Newton, WE; Dean, DR. Involvement of the P cluster in intramolecular electron transfer within the nitrogenase MoFe protein. J. Biol. Chem. 1995; 270: 27007-27013.

Peters, JW; Fisher, K; Dean, DR. Identification of a nitrogenase protein-protein interaction site defined by residues 59 through 67 within the Azotobacter vinelandii Fe protein. J. Biol. Chem. 1994; 269: 28076-28083.

Raybuck, SA; Ramer, SE; Abbanat, DR; Peters, JW; Ormejohnson, WH; Ferry, JG; Walsh, CT. Demonstration of carbon-carbon bond-cleavage of acetyl coenzyme-a by using isotopic exchange catalyzed by the Co dehydrogenase complex from acetate-grown methanosarcina-thermophila. J. Bacteriol. 1991; 173: 929-932.

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Projects

Publications

2011-2012

E.S. Boyd, T.L. Hamilton, and J. W. Peters “An alternative path for the evolution of biological nitrogen fixation” Science – Submitted (2011)

M.A. Kofoed, D.A. Wampler, A.S. Pandey, J.W. Peters, and S.A. Ensign “Roles of the redox active disulfide, and histidine residues forming a catalytic dyad, in reactions catalyzed by 2-Ketopropyl-Coenzyme M Oxidoreductase/Carboxylase” J. Bacteriol. – Submitted (2011)

A.J. Cornish, G. Hong, K. Gaertner, H. Yang, J.W. Peters, R. Pachter, E.L. Hegg “The mechanism of proton transfer in [FeFe]-Hydrogenase from Clostridium pasteurianum” J. Biol. Chem. – Submitted (2011)

T.L. Hamilton, K. Vogl, D.A. Bryant, E.S. Boyd, and J.W. Peters “Environmental constraints defining the distribution, composition, and evolution of chlorophototrophs in thermal features of Yellowstone National Park” Geobiology – Submitted (2011)

T.L. Hamilton, M.R. Jacobson, M. Ludwig, E.S. Boyd, D.A. Bryant, D.R. Dean, and J.W. Peters “Segmented accumulation of nif structural gene mRNA in Azotobacter vinelandii” J. Bacteriol. – Submitted (2011)

T.L. Hamilton, M. Ludwig, R.A. Dixon, E.S. Boyd, P.C. Dos Santos, J.C. Sebutal, D.A. Bryant, D.R. Dean, and J.W. Peters “Transcriptional profiling of nitrogen fixation in Azotobacter vinelandii” J. Bacteriol. – Submitted (2011)

D.W. Mulder, E.M. Shepard, J.E. Meuser, N. Joshi, P.W. King, M.C. Posewitz, J.B. Broderick, and J.W. Peters “Structural Insights into [FeFe]-Hydrogenase Maturation” Structure – Accepted (2011)

O.A. Zadvornyy, J.E. Lucon, R. Gerlach, N.A. Zorin, T. Douglas, T.E. Elgren, and J.W. Peters “Photoinduced H2 production by stable [NiFe]-hydrogenases from T. roseopersicina covalently linked to a Ru(II) photosensitizer” J. Inorg. Biochem. - Revision Requested (2011)

E.S. Boyd, R.K. Lange, A.C. Mitchell, J.R. Havig, T.L. Hamilton, E.L. Shock, J.W. Peters, and M. Skidmore “Diversity, abundance, and potential activity of nitrifying and denitrifying microbial assemblages in a subglacial ecosystem" Appl. Environ. Microbiol. - Accepted (2011)

E.S. Boyd, A.D. Anbar, S. Miller, T.L. Hamilton, M. Lavin, and J.W. Peters “A late methanogen origin for molybdenum-dependent nitrogenase” Geobiology 9:221-232 (2011) – highlighted in Science as Editor’s Choice

T.L. Hamilton, R.K. Lange, E.S. Boyd, and J.W. Peters “Biological nitrogen fixation in acidic high temperature geothermal springs in Yellowstone National Park, Wyoming” Environ. Microbiol. Available as Epub ahead of print - doi: 10.1111/j.1462-2920.2011.02475 (2011)

E.M. Shepard, E.S. Boyd, J.B. Broderick, and J.W. Peters “Biosynthesis of complex iron-sulfur enzymes” Curr. Opin. Struct. Biol. 15:319-327 (2011)

J.W. Peters, L.M. Rubio “Biochemistry of Mo-nitrogenase” in The Molecular Basis of the Nitrogen Cycle (ed. J. Moir) Horizon Scientific Press In press (2011)

D.W. Mulder and J.W. Peters “Nucleotide-dependent conformational change and complex interactions in nitrogenase” in Methods in Nitrogen Fixation (ed. by M.W. Ribbe) Springer/Humana Press In press (2011)

J.W. Peters, E.S. Boyd, S. D’Adamo, D.W. Mulder, J. Therien, and M.C. Posewitz “Hydrogenases, nitrogenases, anoxia, and H2 production in water-oxidizing phototrophs” in Algae for Biofuels and Energy(ed.M.A. Borowitzka) Springer/Humana Press In press (2011)

T.L. Hamilton, E.S. Boyd, and J.W. Peters “Geochemical controls on the phylogenetic structure and composition of NifH in Yellowstone National Park” Microbial. Ecol. – Available as Epub ahead of print (2011)

K.D. Swanson, B.R. Duffus, T.E. Beard, J.W. Peters, and J.B. Broderick “Cyanide and carbon monoxide ligand formation in hydrogenase biosynthesis” Epub ahead of print DOI: 10.1002/ejic.201001056 (2011) – included inside cover art.

J.M. Boyd, J.A. Endrizzi, T.L. Hamilton, D.M. Downs, and J.W. Peters “FAD binding by ApbE protein from Salmonella enterica: a new class of flavoproteins” J. Bacteriol. 193:887-895 (2011)

D.W. Mulder, A.S. Pandey, S.A. Ensign, and J.W. Peters “Carbon dioxide binding and redox dependent substrate activation at the active site of 2-ketopropyl coenzyme M oxidoreductase/carboxylase” FEBS Lett. 585:459-464 (2011)

2009-2010

Zadvornyy, O; Barrows, AM; Zorin, NA; Peters, JW; Elgren, TE. High level of hydrogen production activity achieved for hydrogenase encapsulated in sol–gel material doped with carbon nanotubes. J. Mater. Chem., 2010; 20: 1065–1067.

Shepard, EM; Duffus, BR; George, SJ; McGlynn, SE; Challand, MR; Swanson, KD; Roach, PL; Cramer, SP; Peters, JW; Broderick, JB. [FeFe]-Hydrogenase Maturation: HydG-Catalyzed Synthesis of Carbon Monoxide. J. Am. Chem. Soc. 2010; 132: 9247-9249.

Boyd, ES; Hamilton, TL; Spear, JR; Lavin, M; Peters, JW. [FeFe]-hydrogenase in Yellowstone National Park: evidence for dispersal limitation and phylogenetic niche conservatism. ISME J. 2010; 4: 1485-1495.

Shepard, EM; McGlynn, SE; Bueling, AL; Grady-Smith, CS; George, SJ; Winslow, MA; Cramer, SP; Peters, JW; Broderick, JB. Synthesis of the 2Fe subcluster of the [FeFe]-hydrogenase H cluster on the HydF scaffold. Proc. Natl. Acad. Sci. USA 2010; 107: 10448-10453.

Mulder, DW; Boyd, ES; Sarma, R; Lange, RK; Endrizzi, JA; Broderick, JB; Peters, JW. Stepwise [FeFe]-hydrogenase H-cluster assembly revealed in the structure of HydA(DeltaEFG). Nature 2010; 465: 248-251.

Soboh, B; Boyd, ES; Zhao, D; Peters, JW; Rubio, LM. Substrate specificity and evolutionary implications of a NifDK enzyme carrying NifB-co at its active site. FEBS Lett. 2010; 584: 1487-1492.

Driesener, RC; Challand, MR; McGlynn, SE; Shepard, EM; Boyd, ES; Broderick, JB; Peters, JW; Roach, PL. [FeFe]-hydrogenase cyanide ligands derived from S-adenosylmethionine-dependent cleavage of tyrosine. Angew. Chem. Int. Ed. Engl. 2010; 49: 1687-1690.

Sarma, R; Barney, BM; Keable, S; Dean, DR; Seefeldt, LC; Peters, JW. Insights into substrate binding at FeMo-cofactor in nitrogenase from the structure of an alpha-70(Ile) MoFe protein variant. J. Inorg. Biochem. 2010; 104: 385-389.

Zadvornyy, OA; Allen, M; Brumfield, SK; Varpness, Z; Boyd, ES; Zorin, NA; Serebriakova, L; Douglas, T; Peters, JW. Hydrogen enhances nickel tolerance in the purple sulfur bacterium Thiocapsa roseopersicina. Environ. Sci. Technol. 2010; 44: 834-840.

McGlynn, SE; Boyd, ES; Shepard, EM; Lange, RK; Gerlach, R; Broderick, JB; Peters, JW. Identification and characterization of a novel member of the radical AdoMet enzyme superfamily and implications for the biosynthesis of the Hmd hydrogenase active site cofactor. J. Bacteriol. 2010; 192: 595-598.

Beer, LL; Boyd, ES; Peters, JW; Posewitz, MC. Engineering algae for biohydroen and biofuel production. Curr. Opin. Biotechnol. 2009; 20: 264-271.

Mulder, DW; Ortillo, DO; Gardenghi, DJ; Naumov, AV; Ruebush, SS; Szilagyi, RK; Huynh B; Broderick, JB; Peters, JW. Activation of HydA∆EFG requires a preformed [4Fe-4S] cluster. Biochemistry 2009; 48: 6240-6248.

Boyd, ES; Spear, JR; Peters, JW. [FeFe] hydrogenase genetic diversity provides insight into molecular adaption in a saline microbial mat community. Appl. Environ. Microbiol. 2009; 75: 4620-4623.

Mcglynn, SE; Mulder, DW; Shepard, SE; Broderick, JB; Peters, JW. Hydrogenase cluster biosynthesis: organometallic chemisty nature's way. Dalton Trans. 2009; 4274-4285.

Peters, JW. Carbon monoxide and cyanide lignads in the active site of [FeFe]-hydrogeanse. In Metal ions in life sciences. Sigel, A; Sigel, H; Sigel, RKO; Eds. RSC Pub: 2009; 6, 179-218.

2006-2008

Sarma, R; Barney, BM; Hamilton, TL; Jones, A; Seefeldt, LC; Peters, JW. Crystal structure of the L protein of Rhodobacter sphaeroides light-independent protochlorophyllide reductase with MgADP bound: a homologue of the nitrogenase Fe protein. Biochemistry 2008; 47: 13004-13015.

Krishnakumar, AM; Sliwa, D; Endrizzi, JA; Boyd, ES; Ensign, SA; Peters, JW. Getting a handle on the role of coenzyme M in alkene metabolism. Microbiol. Mol. Biol. Rev.; 72: 445-456.

Posewitz, MC; Mulder, DW; Peters, JW. New Frontiers in Hydrogenase Structure and Biosynthesis. Current Chemical Biology 2008; 2: 178-199.

McGlynn, SE; Shepard, EM; Winslow, MA; Naumov, AV; Duschene, KS; Posewitz, MC; Broderick, WE; Broderick, WE; Broderick, JB; Peters, JW. HydF as a scaffold protein in [FeFe] hydrogenase H-cluster biosynthesis. FEBS Lett. 2008; 582: 2183-2187.

Pandey, AS; Harris, TV; Giles, LJ; Peters, JW; Szilagyi, RK. Dithiomethylether as a ligand in the hydrogenase h-cluster. J. Am. Chem. Soc. 2008; 130: 4533-4540.

Sarma R; Mulder, DW; Brecht, E; Szilagy, RK; Seefeldt, LC; Tsuruta, H; Peters, JW. Probing the MgATP-bound conformation of the nitrogenase Fe protein by solution small-angle X-ray scattering. Biochemistry 2007; 46: 14058-14066.

Peters, JW; Bothner, B; Kelly, S. Unfolding the mystery of protein stability. Yellowstone Sci 2007.

McGlynn, SE; Ruebush, SS; Naumov, A; Nagy, LE; Dubini, A; King, PW; Broderick, JB; Posewitz, MC; Peters, JW. In vitro activation of [FeFe] hydrogenase: new insights into hydrogenase maturation. J. Biol. Inorg. Chem. 2007; 12: 443-447.

Sen, S; Peters, JW. The thermal adaptation of the nitrogenase Fe protein from thermophilic Methanobacter thermoautotrophicus. Proteins 2006; 62: 450-460.

Peters, JW; Szilagyi, RK; Naumov, A; Douglas, T,. A radical solution for the biosynthesis of the H-cluster of hydrogenase. FEBS Lett. 2006; 580: 363-367.

Pandey, AS; Nocek, B; Clark, DD; Ensign, SA; Peters, JW. Mechanistic implications of the structure of the mixed-disulfide intermediate of the disulfide oxidoreductase, 2-ketopropyl-coenzyme M oxidoreductase/carboxylase. Biochemistry 2006; 45: 113-120.

Steunou, AS; Bhaya, D; Bateson, MM; Melendrez, MC; Ward, DM; Brecht, E; Peters, JW; Kuhl, M; Grossman, AR. In situ analysis of nitrogen fixation and metabolic switching in unicellular thermophilic cyanobacteria inhabiting hot spring microbial mats. Proc. Natl. Acad. Sci. USA 2006; 103: 2398-2403.

Peters, JW; Szilagyi, RK. Exploring new frontiers of nitrogenase structure and mechanism. Curr. Opin. Chem. Biol. 2006; 10: 101-108.

Sen, S; Krishnakumar, A; McClead, J; Johnson, MK; Seefeldt, LC; Szilagyi, RK;

Peters, JW. Insights into the role of nucleotide-dependent conformational change in nitrogenase catalysis: Structural characterization of the nitrogenase Fe protein Leu127 deletion variant with bound MgATP. J. Inorg. Biochem. 2006; 100: 1041-1052.

Krishnakumar, AM; Nocek, BP; Clark, DD; Ensign, SA; Peters, JW. Structural basis for stereoselectivity in the (R)- and (S)-hydroxypropylthioethanesulfonate dehydrogenases. Biochemistry 2006; 45: 8831-8840.

Schwab, DE; Tard, C; Brecht, E; Peters, JW; Pickett, CJ; Szilagyi, RK. On the electronic structure of the hydrogenase H-cluster. Chem. Commun. 2006: 3696-3698.

2004-2005

Sen, S; Peters, JW. The role of MgATP in nitrogenase catalysis In Proceedings of the 14th International Nitrogen Fixation Congress, 2005.

Copik, AJ; Nocek, BP; Swierczek, SI; Ruebush, S; Jang, SB; Meng, L; D'Souza V, M; Peters, JW; Bennett, B; Holz, RC. EPR and X-ray crystallographic characterization of the product-bound form of the MnII-loaded methionyl aminopeptidase from Pyrococcus furiosus. Biochemistry 2005; 44: 121-129.

Elgren, TE; Zadvorny, OA; Brecht, E; Douglas, T; Zorin, NA; Maroney, MJ; Peters, JW. Immobilization of active hydrogenases by encapsulation in polymeric porous gels. Nano Lett. 2005; 5: 2085-2087.

Varpness, Z; Peters, JW; Young, M; Douglas, T. Biomimetic synthesis of a H2 catalyst using a protein cage architecture. Nano Lett. 2005; 5: 2306-2309.

Benton, PMC; Peters, JW. Nitrogenase structures. In Nitrogen Fixation, Smith, B. E.; Richards, R., Eds. Kluwer: 2004; pp 77-96.

Nocek, B; Boyd, J; Ensign, SA; Peters, JW. Crystallization and preliminary X-ray analysis of an acetone carboxylase from Xanthobacter autotrophicus strain Py2. Acta Crystallogr. D. Biol. Crystallogr. 2004; 60: 385-387.

Sen, S; Igarashi, R; Smith, A; Johnson, MK; Seefeldt, LC; Peters, JW. A

conformational mimic of the MgATP-bound "on state" of the nitrogenase iron protein. Biochemistry 2004; 43: 1787-1797.

Jang, SB; Jeong, MS; Seefeldt, LC; Peters, JW. Structural and biochemical implications of single amino acid substitutions in the nucleotide-dependent switch regions of the nitrogenase Fe protein from Azotobacter vinelandii. J. Biol. Inorg. Chem. 2004; 9: 1028-1033.

2002-2003

Swierczek, K; Peters, JW; Hengge, AC. A convenient synthesis of phosphonothioic acids. Tetrahedron 2003; 59: 595-599.

Drennan, CL; Peters, JW. Surprising cofactors in metalloenzymes. Curr. Opin. Struct. Biol. 2003; 13: 220-226.

Swierczek, K; Pandey, AS; Peters, JW; Hengge, AC. A comparison of phosphonothioic acids with phosphonic acids as phosphatase inhibitors. J. Med. Chem. 2003; 46: 3703-3708.

Benton, PMC; Peters, JW. Nitrogenase structures. In Nitrogen Fixation at the Millenium, Leigh, G. L., Ed. Elsevier: 2002.

Peters, JW. A trio of transition metals in anaerobic CO2 fixation. Science 2002; 298: 552-553.

Chen, Z; Lemon, BJ; Huang, S; Swartz, DJ; Peters, JW; Bagley, KA. Infrared studies of the CO-inhibited form of the Fe-only hydrogenase from Clostridium pasteurianum I: examination of its light sensitivity at cryogenic temperatures. Biochemistry 2002; 41: 2036-2043.

Nocek, B; Clark, DD; Ensign, SA; Peters, JW. Crystallization and preliminary X-ray analysis of an R-2-hydroxypropyl-coenzyme M dehydrogenase. Acta Crystallogr. D. Biol. Crystallogr. 2002; 58: 1470-1473.

Nocek, B; Jang, SB; Jeong, MS; Clark, DD; Ensign, SA; Peters, JW. Structural basis for CO2 fixation by a novel member of the disulfide oxidoreductase family of enzymes, 2-ketopropyl-coenzyme M oxidoreductase/carboxylase. Biochemistry 2002; 41: 12907-12913.

2000-2001

Lemon, BJ; Peters, JW. Fe-only hydrogenases. In Handbook of Metalloproteins, Messerschmidt, A.; Huber, R.; Poulos, T.; Weighardt, K., Eds. 2001

pp 738-750.

Zadvornyy, O; Barrows, AM; Zorin, NA; Peters, JW; Elgren, TE. High level of hydrogen production activity achieved for hydrogenase encapsulated in sol–gel material doped with carbon nanotubes. ***J. Mater. Chem.*, 2010; 20**: 1065–1067.

Mulder, DW; Ortillo, DO; Gardenghi, DJ; Naumov, AV; Ruebush, SS; Szilagyi, RK; Huynh B; Broderick, JB; Peters, JW. Activation of HydA^∆EFG requires a preformed [4Fe-4S] cluster. Biochemistry 2009; 48: 6240-6248.