pyrococcus furiosus

Summary

Summary: A species of strictly anaerobic, hyperthermophilic archaea which lives in geothermally-heated marine sediments. It exhibits heterotropic growth by fermentation or sulfur respiration.

Top Publications

  1. Williams E, Lowe T, Savas J, DiRuggiero J. Microarray analysis of the hyperthermophilic archaeon Pyrococcus furiosus exposed to gamma irradiation. Extremophiles. 2007;11:19-29 pubmed
    The remarkable survival of the hyperthermophilic archaeon Pyrococcus furiosus to ionizing radiation was previously demonstrated...
  2. Nahalka J. Physiological aggregation of maltodextrin phosphorylase from Pyrococcus furiosus and its application in a process of batch starch degradation to alpha-D-glucose-1-phosphate. J Ind Microbiol Biotechnol. 2008;35:219-23 pubmed
    Maltodextrin phosphorylase from Pyrococcus furiosus (PF1535) was fused with the cellulose-binding domain of Clostridium cellulovorans serving as an aggregation module...
  3. Griese J, Hopfner K. Structure and DNA-binding activity of the Pyrococcus furiosus SMC protein hinge domain. Proteins. 2011;79:558-68 pubmed publisher
    ..We studied the SMC hinge domain from the thermophilic archaeon Pyrococcus furiosus. Its crystal structure shows that the SMC hinge domain fold is largely conserved between archaea and ..
  4. van Vugt Lussenburg B, van der Weel L, Hagen W, Hagedoorn P. Identification of two [4Fe-4S]-cluster-containing hydro-lyases from Pyrococcus furiosus. Microbiology. 2009;155:3015-20 pubmed publisher
    The hyperthermophilic archaeon Pyrococcus furiosus is a strict anaerobe. It is therefore not expected to use the oxidative tricarboxylic acid (TCA) cycle for energy transduction...
  5. Akita M, Adachi A, Takemura K, Yamagami T, Matsunaga F, Ishino Y. Cdc6/Orc1 from Pyrococcus furiosus may act as the origin recognition protein and Mcm helicase recruiter. Genes Cells. 2010;15:537-52 pubmed publisher
    ..We showed that the Cdc6/Orc1 protein from the hyperthermophilic archaeon Pyrococcus furiosus specifically binds to the oriC region in the whole genome...
  6. Bol E, Bevers L, Hagedoorn P, Hagen W. Redox chemistry of tungsten and iron-sulfur prosthetic groups in Pyrococcus furiosus formaldehyde ferredoxin oxidoreductase. J Biol Inorg Chem. 2006;11:999-1006 pubmed publisher
    ..enzymes of the five-membered family of aldehyde oxidoreductases in the hyperthermophilic archaeon Pyrococcus furiosus. In dye-mediated equilibrium redox titrations, the tungsten in active P...
  7. Hummel C, Lancaster K, Crane E. Determination of coenzyme A levels in Pyrococcus furiosus and other Archaea: implications for a general role for coenzyme A in thermophiles. FEMS Microbiol Lett. 2005;252:229-34 pubmed
    Physiologically significant levels of intracellular coenzyme A were identified in Pyrococcus furiosus, Thermococcus litoralis, and Sulfolobus solfataricus, suggesting a role for CoA as an important low molecular mass thiol in the ..
  8. Koning S, Konings W, Driessen A. Biochemical evidence for the presence of two alpha-glucoside ABC-transport systems in the hyperthermophilic archaeon Pyrococcus furiosus. Archaea. 2002;1:19-25 pubmed
    The hyperthermophilic archaeon Pyrococcus furiosus can utilize different carbohydrates, such as starch, maltose and trehalose...
  9. Maher M, Ghosh M, Grunden A, Menon A, Adams M, Freeman H, et al. Structure of the prolidase from Pyrococcus furiosus. Biochemistry. 2004;43:2771-83 pubmed publisher
    The structure of prolidase from the hyperthermophilic archaeon Pyrococcus furiosus (Pfprol) has been solved and refined at 2.0 A resolution. This is the first structure of a prolidase, i.e...

More Information

Publications94

  1. Kim S, Kim D, Kim J, Kang L, Cho H. Crystal structure of Pfu, the high fidelity DNA polymerase from Pyrococcus furiosus. Int J Biol Macromol. 2008;42:356-61 pubmed publisher
    ..resolution crystal structure of Pfu DNA polymerase, the most commonly used high fidelity PCR enzyme, from Pyrococcus furiosus. Although the structures of Pfu and KOD1 are highly similar, the structure of Pfu elucidates the electron ..
  2. Nishino T, Komori K, Tsuchiya D, Ishino Y, Morikawa K. Crystal structure and functional implications of Pyrococcus furiosus hef helicase domain involved in branched DNA processing. Structure. 2005;13:143-53 pubmed
    ..Here, we report the crystal structure of the helicase domain of the Hef protein from Pyrococcus furiosus. The structure reveals a novel helical insertion between the two conserved helicase core domains...
  3. Williams R, Moncalian G, Williams J, Yamada Y, Limbo O, Shin D, et al. Mre11 dimers coordinate DNA end bridging and nuclease processing in double-strand-break repair. Cell. 2008;135:97-109 pubmed publisher
    ..during initiation of DSB repair, we combined small-angle X-ray scattering (SAXS) and crystal structures of Pyrococcus furiosus Mre11 dimers bound to DNA with mutational analyses of fission yeast Mre11...
  4. Hopkins B, Paull T. The P. furiosus mre11/rad50 complex promotes 5' strand resection at a DNA double-strand break. Cell. 2008;135:250-60 pubmed publisher
    ..Here we show that purified Mre11 and Rad50 from Pyrococcus furiosus act cooperatively with HerA and NurA to resect the 5' strand at a DNA end under physiological conditions in ..
  5. Naji S, Grünberg S, Thomm M. The RPB7 orthologue E' is required for transcriptional activity of a reconstituted archaeal core enzyme at low temperatures and stimulates open complex formation. J Biol Chem. 2007;282:11047-57 pubmed
    ..reconstitution of the 11-subunit RNA polymerase and of the core enzyme from the hyperthermophilic Archaeon Pyrococcus furiosus. The core enzyme showed significant activity between 70 and 80 degrees C but was almost inactive at 60 ..
  6. Ramsay B, Wiedenheft B, Allen M, Gauss G, Lawrence C, Young M, et al. Dps-like protein from the hyperthermophilic archaeon Pyrococcus furiosus. J Inorg Biochem. 2006;100:1061-8 pubmed publisher
    ..the cloning, isolation, and characterization of a Dps-like protein from the hyperthermophilic archaeon Pyrococcus furiosus (PfDps-like)...
  7. Porcelli M, Moretti M, Concilio L, Forte S, Merlino A, Graziano G, et al. S-adenosylhomocysteine hydrolase from the archaeon Pyrococcus furiosus: biochemical characterization and analysis of protein structure by comparative molecular modeling. Proteins. 2005;58:815-25 pubmed publisher
    ..AdoHcyHD from the hyperthermophilic archaeon Pyrococcus furiosus (PfAdoHcyHD) was cloned, expressed in Escherichia coli, and purified...
  8. Lipscomb G, Keese A, Cowart D, Schut G, Thomm M, Adams M, et al. SurR: a transcriptional activator and repressor controlling hydrogen and elemental sulphur metabolism in Pyrococcus furiosus. Mol Microbiol. 2009;71:332-49 pubmed publisher
    This work describes the identification and characterization of SurR, Pyrococcus furiosus sulphur (S(0)) response regulator...
  9. Tsuji H, Nishimura S, Inui T, Kado Y, Ishikawa K, Nakamura T, et al. Kinetic and crystallographic analyses of the catalytic domain of chitinase from Pyrococcus furiosus- the role of conserved residues in the active site. FEBS J. 2010;277:2683-95 pubmed publisher
    The hyperthermostable chitinase from the hyperthermophilic archaeon Pyrococcus furiosus has a unique multidomain structure containing two chitin-binding domains and two catalytic domains, and exhibits strong crystalline chitin ..
  10. LeMaster D, Tang J, Paredes D, HERNANDEZ G. Enhanced thermal stability achieved without increased conformational rigidity at physiological temperatures: spatial propagation of differential flexibility in rubredoxin hybrids. Proteins. 2005;61:608-16 pubmed
    ..In apparent contrast to this paradigm, both Pyrococcus furiosus (Pf) rubredoxin, the most thermostable protein characterized to date, and its Clostridium pasteurianum (Cp) ..
  11. Park J, Sun J, Park S, Hwang H, Park M, Shin M, et al. Crystal structure of Cmr5 from Pyrococcus furiosus and its functional implications. FEBS Lett. 2013;587:562-8 pubmed publisher
    ..The six Cmr proteins of Pyrococcus furiosus (pfCmr1-pfCmr6) form a Cmr effector complex that functions against exogenous nucleic acid...
  12. Anderson J, Hern ndez G, LeMaster D. A billion-fold range in acidity for the solvent-exposed amides of Pyrococcus furiosus rubredoxin. Biochemistry. 2008;47:6178-88 pubmed publisher
    The exchange rates of the static solvent-accessible amide hydrogens of Pyrococcus furiosus rubredoxin range from near the diffusion-limited rate to a billion-fold slower for the non-hydrogen-bonded Val 38 (eubacterial numbering)...
  13. Lee S, Surma M, Hausner W, Thomm M, Boos W. The role of TrmB and TrmB-like transcriptional regulators for sugar transport and metabolism in the hyperthermophilic archaeon Pyrococcus furiosus. Arch Microbiol. 2008;190:247-56 pubmed publisher
    TrmB of Pyrococcus furiosus was discovered as the trehalose/maltose-specific repressor for the genes encoding the trehalose/maltose high-affinity ABC transporter (the TM system)...
  14. Tatur J, Hagen W. The dinuclear iron-oxo ferroxidase center of Pyrococcus furiosus ferritin is a stable prosthetic group with unexpectedly high reduction potentials. FEBS Lett. 2005;579:4729-32 pubmed
    Recombinant ferritin from Pyrococcus furiosus expressed in Escherichia coli exhibits in EPR monitored redox titrations a mixed valence (Fe(3+)-Fe2+) S=1/2 signal at intermediate potentials that is a high-resolution homolog of the ..
  15. Vonck J, Pisa K, Morgner N, Brutschy B, Muller V. Three-dimensional structure of A1A0 ATP synthase from the hyperthermophilic archaeon Pyrococcus furiosus by electron microscopy. J Biol Chem. 2009;284:10110-9 pubmed publisher
    ..The A(1)A(0) complex from the hyperthermophile Pyrococcus furiosus was isolated...
  16. Bohmer N, Lutz Wahl S, Fischer L. Recombinant production of hyperthermostable CelB from Pyrococcus furiosus in Lactobacillus sp. Appl Microbiol Biotechnol. 2012;96:903-12 pubmed publisher
    ..2005), to produce a hyper-thermophilic ?-glycosidase (CelB) from Pyrococcus furiosus in Lactobacillus plantarum NC8 and Lactobacillus casei as hosts, respectively...
  17. Emptage K, O Neill R, Solovyova A, Connolly B. Interplay between DNA polymerase and proliferating cell nuclear antigen switches off base excision repair of uracil and hypoxanthine during replication in archaea. J Mol Biol. 2008;383:762-71 pubmed publisher
  18. Nishida H, Kiyonari S, Ishino Y, Morikawa K. The closed structure of an archaeal DNA ligase from Pyrococcus furiosus. J Mol Biol. 2006;360:956-67 pubmed publisher
    ..Here, we report the 1.8 A resolution structure of Pyrococcus furiosus DNA ligase (PfuLig), which represents the first full-length atomic view of an ATP-dependent eukaryotic-type ..
  19. Liu W, Vierke G, Wenke A, Thomm M, Ladenstein R. Crystal structure of the archaeal heat shock regulator from Pyrococcus furiosus: a molecular chimera representing eukaryal and bacterial features. J Mol Biol. 2007;369:474-88 pubmed publisher
    We report here the crystal structure of a protein from Pyrococcus furiosus (Phr) that represents the first characterized heat shock transcription factor in archaea...
  20. Strand K, Sun C, Li T, Jenney F, Schut G, Adams M. Oxidative stress protection and the repair response to hydrogen peroxide in the hyperthermophilic archaeon Pyrococcus furiosus and in related species. Arch Microbiol. 2010;192:447-59 pubmed publisher
    b>Pyrococcus furiosus is a shallow marine, anaerobic archaeon that grows optimally at 100 degrees C. Addition of H(2)O(2) (0.5 mM) to a growing culture resulted in the cessation of growth with a 2-h lag before normal growth resumed...
  21. Bevers L, Hagedoorn P, Krijger G, Hagen W. Tungsten transport protein A (WtpA) in Pyrococcus furiosus: the first member of a new class of tungstate and molybdate transporters. J Bacteriol. 2006;188:6498-505 pubmed
    A novel tungstate and molybdate binding protein has been discovered from the hyperthermophilic archaeon Pyrococcus furiosus. This tungstate transport protein A (WtpA) is part of a new ABC transporter system selective for tungstate and ..
  22. Goede B, Naji S, von Kampen O, Ilg K, Thomm M. Protein-protein interactions in the archaeal transcriptional machinery: binding studies of isolated RNA polymerase subunits and transcription factors. J Biol Chem. 2006;281:30581-92 pubmed
    ..We described here the cloning expression and purification of 11 bacterially expressed subunits of the Pyrococcus furiosus RNAP...
  23. Yoshimochi T, Fujikane R, Kawanami M, Matsunaga F, Ishino Y. The GINS complex from Pyrococcus furiosus stimulates the MCM helicase activity. J Biol Chem. 2008;283:1601-9 pubmed
    b>Pyrococcus furiosus, a hyperthermophilic Archaea, has homologs of the eukaryotic MCM (mini-chromosome maintenance) helicase and GINS complex...
  24. Pedone E, Ren B, Ladenstein R, Rossi M, Bartolucci S. Functional properties of the protein disulfide oxidoreductase from the archaeon Pyrococcus furiosus: a member of a novel protein family related to protein disulfide-isomerase. Eur J Biochem. 2004;271:3437-48 pubmed
    ..A disulfide oxidoreductase, a highly thermostable protein, was isolated from Pyrococcus furiosus (PfPDO), which is characterized by two redox sites (CXXC) and an unusual molecular mass...
  25. Nishida H, Mayanagi K, Kiyonari S, Sato Y, Oyama T, Ishino Y, et al. Structural determinant for switching between the polymerase and exonuclease modes in the PCNA-replicative DNA polymerase complex. Proc Natl Acad Sci U S A. 2009;106:20693-8 pubmed publisher
    ..We determined the crystal structure of Pyrococcus furiosus DNA polymerase (PfuPol) complexed with the cognate monomeric PCNA, which allowed us to construct a ..
  26. Dutoit R, de Ruyck J, Durisotti V, Legrain C, Jacobs E, Wouters J. Overexpression, physicochemical characterization, and modeling of a hyperthermophilic pyrococcus furiosus type 2 IPP isomerase. Proteins. 2008;71:1699-707 pubmed
    In the first step of this study, type 2 isopentenyl diphosphate isomerase (IDI2) from Pyrococcus furiosus (pf-IDI2), a hyperthermophilic microorganism, was cloned and overexpressed in E. coli...
  27. LeMaster D, Tang J, HERNANDEZ G. Absence of kinetic thermal stabilization in a hyperthermophile rubredoxin indicated by 40 microsecond folding in the presence of irreversible denaturation. Proteins. 2004;57:118-27 pubmed
    ..A commonly cited model for kinetic thermal stabilization is the rubredoxin from Pyrococcus furiosus (Pf), which exhibits an irreversible denaturation lifetime at 100 degrees C of nearly a week...
  28. Basen M, Sun J, Adams M. Engineering a hyperthermophilic archaeon for temperature-dependent product formation. MBio. 2012;3:e00053-12 pubmed publisher
    ..We have engineered the hyperthermophilic archaeon Pyrococcus furiosus, which grows optimally at 100°C, to switch its end products of fermentation in a temperature-controlled ..
  29. Wardle J, Burgers P, Cann I, Darley K, Heslop P, Johansson E, et al. Uracil recognition by replicative DNA polymerases is limited to the archaea, not occurring with bacteria and eukarya. Nucleic Acids Res. 2008;36:705-11 pubmed
    Family B DNA polymerases from archaea such as Pyrococcus furiosus, which live at temperatures approximately 100 degrees C, specifically recognize uracil in DNA templates and stall replication in response to this base...
  30. Egea P, Tsuruta H, De Leon G, Napetschnig J, Walter P, Stroud R. Structures of the signal recognition particle receptor from the archaeon Pyrococcus furiosus: implications for the targeting step at the membrane. PLoS ONE. 2008;3:e3619 pubmed publisher
    ..We present the first X-ray structures of an archeal FtsY, the receptor from the hyper-thermophile Pyrococcus furiosus (Pfu), in its free and GDP*magnesium-bound forms...
  31. Tori K, Ishino S, Kiyonari S, Tahara S, Ishino Y. A novel single-strand specific 3'-5' exonuclease found in the hyperthermophilic archaeon, Pyrococcus furiosus. PLoS ONE. 2013;8:e58497 pubmed publisher
    ..We searched for 3'-5' exonuclease activity in the hyperthermophilic archaeon, Pyrococcus furiosus, and identified a protein with the target activity...
  32. Du X, Tove S, Kast Hutcheson K, Grunden A. Characterization of the dinuclear metal center of Pyrococcus furiosus prolidase by analysis of targeted mutants. FEBS Lett. 2005;579:6140-6 pubmed publisher
    Prolidases are dipeptidases specific for cleavage of Xaa-Pro dipeptides. Pyrococcus furiosus prolidase is a homodimer having one Co-bound dinuclear metal cluster per monomer with one tightly bound Co(II) site and the other loosely bound (..
  33. Sugar F, Jenney F, Poole F, Brereton P, Izumi M, Shah C, et al. Comparison of small- and large-scale expression of selected Pyrococcus furiosus genes as an aid to high-throughput protein production. J Struct Funct Genomics. 2005;6:149-58 pubmed
    ..This is significantly higher than would be expected by a randomly selected expression condition and validates the use of small-scale expression as a screening tool for more efficient protein production...
  34. Di Giulio M. The ocean abysses witnessed the origin of the genetic code. Gene. 2005;346:7-12 pubmed
    ..Whereas, since the genetic code BI value is statistically higher than that of these non-barophile organisms, it supports the hypothesis that genetic code structuring took place under high hydrostatic pressure...
  35. Amero C, Boomershine W, Xu Y, Foster M. Solution structure of Pyrococcus furiosus RPP21, a component of the archaeal RNase P holoenzyme, and interactions with its RPP29 protein partner. Biochemistry. 2008;47:11704-10 pubmed publisher
    ..We have determined the solution structure of RPP21 from the hyperthermophilic archaeon Pyrococcus furiosus ( Pfu) using conventional and paramagnetic NMR techniques...
  36. Kurihara K, Tanaka I, Chatake T, Adams M, Jenney F, Moiseeva N, et al. Neutron crystallographic study on rubredoxin from Pyrococcus furiosus by BIX-3, a single-crystal diffractometer for biomacromolecules. Proc Natl Acad Sci U S A. 2004;101:11215-20 pubmed publisher
    The structure of a partially deuterated rubredoxin from the hyperthermophilic archaeon Pyrococcus furiosus, an organism that grows optimally at 100 degrees C, was determined by using the neutron single-crystal diffractometer dedicated ..
  37. Dillard B, Demick J, Adams M, Lanzilotta W. A cryo-crystallographic time course for peroxide reduction by rubrerythrin from Pyrococcus furiosus. J Biol Inorg Chem. 2011;16:949-59 pubmed publisher
    High-resolution crystal structures of Pyrococcus furiosus rubrerythrin (PfRbr) in the resting (all-ferrous) state and at time points following exposure of the crystals to hydrogen peroxide are reported...
  38. Lipscomb G, Stirrett K, Schut G, Yang F, Jenney F, Scott R, et al. Natural competence in the hyperthermophilic archaeon Pyrococcus furiosus facilitates genetic manipulation: construction of markerless deletions of genes encoding the two cytoplasmic hydrogenases. Appl Environ Microbiol. 2011;77:2232-8 pubmed publisher
    In attempts to develop a method of introducing DNA into Pyrococcus furiosus, we discovered a variant within the wild-type population that is naturally and efficiently competent for DNA uptake...
  39. Klein B, Bose D, Baker K, Yusoff Z, Zhang X, Murakami K. RNA polymerase and transcription elongation factor Spt4/5 complex structure. Proc Natl Acad Sci U S A. 2011;108:546-50 pubmed publisher
    ..These structures reveal that the cellular RNA polymerases also use a strategy of encircling DNA to enhance its processivity as commonly observed for many nucleic acid processing enzymes including DNA polymerases and helicases...
  40. Xue S, Wang R, Yang F, Terns R, Terns M, Zhang X, et al. Structural basis for substrate placement by an archaeal box C/D ribonucleoprotein particle. Mol Cell. 2010;39:939-49 pubmed publisher
  41. Li L, Ye K. Crystal structure of an H/ACA box ribonucleoprotein particle. Nature. 2006;443:302-7 pubmed
  42. Chandrayan S, McTernan P, Hopkins R, Sun J, Jenney F, Adams M. Engineering hyperthermophilic archaeon Pyrococcus furiosus to overproduce its cytoplasmic [NiFe]-hydrogenase. J Biol Chem. 2012;287:3257-64 pubmed publisher
    The cytoplasmic hydrogenase (SHI) of the hyperthermophilic archaeon Pyrococcus furiosus is an NADP(H)-dependent heterotetrameric enzyme that contains a nickel-iron catalytic site, flavin, and six iron-sulfur clusters...
  43. LeMaster D, Anderson J, HERNANDEZ G. Spatial distribution of dielectric shielding in the interior of Pyrococcus furiosus rubredoxin as sampled in the subnanosecond timeframe by hydrogen exchange. Biophys Chem. 2007;129:43-8 pubmed
  44. Hioki Y, Ogasahara K, Lee S, Ma J, Ishida M, Yamagata Y, et al. The crystal structure of the tryptophan synthase beta subunit from the hyperthermophile Pyrococcus furiosus. Investigation of stabilization factors. Eur J Biochem. 2004;271:2624-35 pubmed publisher
    The structure of the tryptophan synthase beta2 subunit (Pfbeta2) from the hyperthermophile, Pyrococcus furiosus, was determined by X-ray crystallographic analysis at 2.2 A resolution, and its stability was examined by DSC...
  45. Waege I, Schmid G, Thumann S, Thomm M, Hausner W. Shuttle vector-based transformation system for Pyrococcus furiosus. Appl Environ Microbiol. 2010;76:3308-13 pubmed publisher
    b>Pyrococcus furiosus is a model organism for analyses of molecular biology and biochemistry of archaea, but so far no useful genetic tools for this species have been described. We report here a genetic transformation system for P...
  46. Cvetkovic A, Menon A, Thorgersen M, Scott J, Poole F, Jenney F, et al. Microbial metalloproteomes are largely uncharacterized. Nature. 2010;466:779-82 pubmed publisher
    ..mass spectrometry (ICP-MS) to characterize cytoplasmic metalloproteins from an exemplary microorganism (Pyrococcus furiosus). Of 343 metal peaks in chromatography fractions, 158 did not match any predicted metalloprotein...
  47. Madding L, Michel J, Shockley K, Conners S, Epting K, Johnson M, et al. Role of the beta1 subunit in the function and stability of the 20S proteasome in the hyperthermophilic archaeon Pyrococcus furiosus. J Bacteriol. 2007;189:583-90 pubmed
    The hyperthermophilic archaeon Pyrococcus furiosus genome encodes three proteasome component proteins: one alpha protein (PF1571) and two beta proteins (beta1-PF1404 and beta2-PF0159), as well as an ATPase (PF0115), referred to as ..
  48. Baker D, Youssef O, Chastkofsky M, Dy D, Terns R, Terns M. RNA-guided RNA modification: functional organization of the archaeal H/ACA RNP. Genes Dev. 2005;19:1238-48 pubmed
    ..Cbf5 is the protein that specifically recognizes and binds H/ACA guide RNAs. In addition, Cbf5 recruits the two other essential proteins, Gar1 and Nop10, to the pseudouridylation guide complex...
  49. Nakamura T, Mine S, Hagihara Y, Ishikawa K, Ikegami T, Uegaki K. Tertiary structure and carbohydrate recognition by the chitin-binding domain of a hyperthermophilic chitinase from Pyrococcus furiosus. J Mol Biol. 2008;381:670-80 pubmed publisher
    ..alpha and beta crystalline chitins; that studied here was engineered from the genes PF1233 and PF1234 of Pyrococcus furiosus. This chitinase has unique structural features and contains two catalytic domains (AD1 and AD2) and two ..
  50. Kiyonari S, Tahara S, Uchimura M, Shirai T, Ishino S, Ishino Y. Studies on the base excision repair (BER) complex in Pyrococcus furiosus. Biochem Soc Trans. 2009;37:79-82 pubmed publisher
    ..the functional interactions between PCNA and several proteins involved in DNA replication and repair from Pyrococcus furiosus. We recently reported that the activity of UDG (uracil-DNA glycosylase) in P...
  51. Chou C, Shockley K, Conners S, Lewis D, Comfort D, Adams M, et al. Impact of substrate glycoside linkage and elemental sulfur on bioenergetics of and hydrogen production by the hyperthermophilic archaeon Pyrococcus furiosus. Appl Environ Microbiol. 2007;73:6842-53 pubmed
    ..influenced bioenergetics to different extents and by different mechanisms in the hyperthermophilic archaeon Pyrococcus furiosus when it was grown in continuous culture at a dilution rate of 0.45 h(-1) at 90 degrees C...
  52. Kim H, Kataoka M, Ishikawa K. Atomic resolution of the crystal structure of the hyperthermophilic family 12 endocellulase and stabilizing role of the DxDxDG calcium-binding motif in Pyrococcus furiosus. FEBS Lett. 2012;586:1009-13 pubmed publisher
    Hyperthermophilic glycoside hydrolase family 12 endocellulase (EGPf) from the archaeon Pyrococcus furiosus catalyzes the hydrolytic cleavage of ?-1,4-glucosidic linkage in ?-glucan cellulose...
  53. Gao J, Wang J. Re-annotation of two hyperthermophilic archaea Pyrococcus abyssi GE5 and Pyrococcus furiosus DSM 3638. Curr Microbiol. 2012;64:118-29 pubmed publisher
    Pyrococcus abyssi GE5 (P. aby) and Pyrococcus furiosus DSM 3638 (P. fur) are two model hyperthermophilic archaea. However, their annotations in public databases are unsatisfactory...
  54. Pisa K, Huber H, Thomm M, Muller V. A sodium ion-dependent A1AO ATP synthase from the hyperthermophilic archaeon Pyrococcus furiosus. FEBS J. 2007;274:3928-38 pubmed
    The rotor subunit c of the A(1)A(O) ATP synthase of the hyperthermophilic archaeon Pyrococcus furiosus contains a conserved Na(+)-binding motif, indicating that Na(+) is a coupling ion...
  55. Starostina N, Marshburn S, Johnson L, Eddy S, Terns R, Terns M. Circular box C/D RNAs in Pyrococcus furiosus. Proc Natl Acad Sci U S A. 2004;101:14097-101 pubmed
    ..report that box C/D RNAs exist in the rare biological form of RNA circles in the hyperthermophilic archaeon Pyrococcus furiosus. Northern analysis of box C/D RNAs reveals two prominent RNA species of different electrophoretic ..
  56. Schofield L, Anderson B, Patchett M, Norris G, Jameson G, Parker E. Substrate ambiguity and crystal structure of Pyrococcus furiosus 3-deoxy-D-arabino-heptulosonate-7-phosphate synthase: an ancestral 3-deoxyald-2-ulosonate-phosphate synthase?. Biochemistry. 2005;44:11950-62 pubmed publisher
    ..DAH7PS from the hyperthermophile Pyrococcus furiosus is a member of the DAH7PS Ibeta subfamily, which also includes the KDO8PS enzymes...
  57. Yang H, Lipscomb G, Keese A, Schut G, Thomm M, Adams M, et al. SurR regulates hydrogen production in Pyrococcus furiosus by a sulfur-dependent redox switch. Mol Microbiol. 2010;77:1111-22 pubmed publisher
    ..structural and biochemical evidence for a redox switch in the archaeal transcriptional regulator SurR of Pyrococcus furiosus, a hyperthermophilic anaerobe. P...
  58. Massant J, Wouters J, Glansdorff N. Refined structure of Pyrococcus furiosus ornithine carbamoyltransferase at 1.87 A. Acta Crystallogr D Biol Crystallogr. 2003;59:2140-9 pubmed
    Using synchrotron radiation, X-ray data have been collected from Pyrococcus furiosus ornithine carbamoyltransferase (Pfu OTCase) to a maximal resolution of 1.87 A, allowing the refinement of a previous structure at 2.7 A [Villeret et al...
  59. Kanai A, Sato A, Fukuda Y, Okada K, Matsuda T, Sakamoto T, et al. Characterization of a heat-stable enzyme possessing GTP-dependent RNA ligase activity from a hyperthermophilic archaeon, Pyrococcus furiosus. RNA. 2009;15:420-31 pubmed publisher
    Using an expression protein library of a hyperthermophilic archaeon, Pyrococcus furiosus, we identified a gene (PF0027) that encodes a protein with heat-stable cyclic nucleotide phosphodiesterase (CPDase) activity...
  60. Gill S, O Neill R, Lewis R, Connolly B. Interaction of the family-B DNA polymerase from the archaeon Pyrococcus furiosus with deaminated bases. J Mol Biol. 2007;372:855-63 pubmed
    ..Dual recognition of uracil and hypoxanthine may be facilitated by binding the bases with the glycosidic bond in the anti and syn conformation, respectively...
  61. Krug M, Lee S, Diederichs K, Boos W, Welte W. Crystal structure of the sugar binding domain of the archaeal transcriptional regulator TrmB. J Biol Chem. 2006;281:10976-82 pubmed publisher
    ..regulator controlling two operons encoding maltose/trehalose and maltodextrin ABC transporters of Pyrococcus furiosus. The crystal structure of an N-terminal truncated derivative of TrmB (amino acids 2-109 deleted; TrmB(..
  62. Kanai A, Sato A, Imoto J, Tomita M. Archaeal Pyrococcus furiosus thymidylate synthase 1 is an RNA-binding protein. Biochem J. 2006;393:373-9 pubmed publisher
    ..sequence in the loop region as a probe, we screened the protein library from a hyperthermophilic archaeon, Pyrococcus furiosus, and found that a flavin-dependent thymidylate synthase, Pf-Thy1 (Pyrococcus furiosus thymidylate synthase ..
  63. Kiyonari S, Uchimura M, Shirai T, Ishino Y. Physical and functional interactions between uracil-DNA glycosylase and proliferating cell nuclear antigen from the euryarchaeon Pyrococcus furiosus. J Biol Chem. 2008;283:24185-93 pubmed publisher
    ..show the physical and functional interactions between UDG and PCNA from the hyperthermophilic euryarchaeon, Pyrococcus furiosus. The physical interaction between the two proteins was identified by a surface plasmon resonance analysis...
  64. Lin X, Zhang W, Chen Y, Yao B, Zhang Z. Overexpression of celB gene coding for beta-glucosidase from Pyrococcus furiosus using a baculovirus expression vector system in silkworm, Bombyx mori. Z Naturforsch C. 2006;61:595-600 pubmed
    ..CelB gene, encoding the thermostable beta-glucosidase, was amplified from the Pyrococcus furiosus genome and then cloned into the baculoviral transfer vector under the control of the polyhedrin gene ..
  65. Tsai H, Pulukkunat D, Woznick W, Gopalan V. Functional reconstitution and characterization of Pyrococcus furiosus RNase P. Proc Natl Acad Sci U S A. 2006;103:16147-52 pubmed
    ..recombinant subunits, we have reconstituted in vitro the RNase P holoenzyme from the thermophilic archaeon Pyrococcus furiosus (Pfu) and furthered our understanding regarding its functional organization and assembly pathway(s)...
  66. Cacciapuoti G, Porcelli M, Moretti M, Sorrentino F, Concilio L, Zappia V, et al. The first agmatine/cadaverine aminopropyl transferase: biochemical and structural characterization of an enzyme involved in polyamine biosynthesis in the hyperthermophilic archaeon Pyrococcus furiosus. J Bacteriol. 2007;189:6057-67 pubmed publisher
    ..The gene PF0127 encoding ACAPT in the hyperthermophile Pyrococcus furiosus was cloned and expressed in Escherichia coli, and the recombinant protein was purified to homogeneity. P...
  67. Micorescu M, Gr nberg S, Franke A, Cramer P, Thomm M, Bartlett M. Archaeal transcription: function of an alternative transcription factor B from Pyrococcus furiosus. J Bacteriol. 2008;190:157-67 pubmed publisher
    The genome of the hyperthermophile archaeon Pyrococcus furiosus encodes two transcription factor B (TFB) paralogs, one of which (TFB1) was previously characterized in transcription initiation...
  68. Rashid R, Liang B, Baker D, Youssef O, He Y, Phipps K, et al. Crystal structure of a Cbf5-Nop10-Gar1 complex and implications in RNA-guided pseudouridylation and dyskeratosis congenita. Mol Cell. 2006;21:249-60 pubmed publisher
    ..We have also identified a dyskeratosis congenita mutation cluster site within a modeled dyskerin structure...
  69. Lee S, Moulakakis C, Koning S, Hausner W, Thomm M, Boos W. TrmB, a sugar sensing regulator of ABC transporter genes in Pyrococcus furiosus exhibits dual promoter specificity and is controlled by different inducers. Mol Microbiol. 2005;57:1797-807 pubmed
    ..of the trehalose/maltose ABC transporter of the hyperthermophilic archaea Thermococcus litoralis and Pyrococcus furiosus (malE or TM operon), with maltose and trehalose acting as inducers...
  70. Schmid G, Mathiesen G, Arntzen M, Eijsink V, Thomm M. Experimental and computational analysis of the secretome of the hyperthermophilic archaeon Pyrococcus furiosus. Extremophiles. 2013;17:921-30 pubmed publisher
    Although Pyrococcus furiosus is one of the best studied hyperthermophilic archaea, to date no experimental investigation of the extent of protein secretion has been performed...
  71. Näther D, Rachel R, Wanner G, Wirth R. Flagella of Pyrococcus furiosus: multifunctional organelles, made for swimming, adhesion to various surfaces, and cell-cell contacts. J Bacteriol. 2006;188:6915-23 pubmed
    b>Pyrococcus furiosus ("rushing fireball") was named for the ability of this archaeal coccus to rapidly swim at its optimal growth temperature, around 100 degrees C...
  72. Tran T, Dam P, Su Z, Poole F, Adams M, Zhou G, et al. Operon prediction in Pyrococcus furiosus. Nucleic Acids Res. 2007;35:11-20 pubmed
    Identification of operons in the hyperthermophilic archaeon Pyrococcus furiosus represents an important step to understanding the regulatory mechanisms that enable the organism to adapt and thrive in extreme environments...
  73. Kim K, Kim M, Kim G, Kang B. The crystal structure of a novel glucosamine-6-phosphate deaminase from the hyperthermophilic archaeon Pyrococcus furiosus. Proteins. 2007;68:413-7 pubmed publisher
  74. Im Y, Ji M, Lee A, Killens R, Grunden A, Boss W. Expression of Pyrococcus furiosus superoxide reductase in Arabidopsis enhances heat tolerance. Plant Physiol. 2009;151:893-904 pubmed publisher
    ..with endogenous regulation of gene expression, we expressed a gene from the archaeal hyperthermophile Pyrococcus furiosus that reduces O(2)(-). P. furiosus uses superoxide reductase (SOR) rather than SOD to remove superoxide...
  75. Tatur J, Hagedoorn P, Overeijnder M, Hagen W. A highly thermostable ferritin from the hyperthermophilic archaeal anaerobe Pyrococcus furiosus. Extremophiles. 2006;10:139-48 pubmed
    A ferritin from the obligate anaerobe and hyperthermophilic archaeon Pyrococcus furiosus (optimal growth at 100 degrees C) has been cloned and overproduced in Escherichia coli to one-fourth of total cell-free extract protein, and has ..
  76. Tori K, Kimizu M, Ishino S, Ishino Y. DNA polymerases BI and D from the hyperthermophilic archaeon Pyrococcus furiosus both bind to proliferating cell nuclear antigen with their C-terminal PIP-box motifs. J Bacteriol. 2007;189:5652-7 pubmed
    ..b>Pyrococcus furiosus, a hyperthermophilic archaeon, has at least two DNA polymerases, polymerase BI (PolBI) and PolD...
  77. Matsunaga F, Takemura K, Akita M, Adachi A, Yamagami T, Ishino Y. Localized melting of duplex DNA by Cdc6/Orc1 at the DNA replication origin in the hyperthermophilic archaeon Pyrococcus furiosus. Extremophiles. 2010;14:21-31 pubmed publisher
    ..We have found that Cdc6/Orc1 binds to oriC and unwinds duplex DNA in the hyperthermophilic archaeon Pyrococcus furiosus, by means of a P1 endonuclease assay...
  78. Tempel W, Liu Z, Schubot F, Shah A, Weinberg M, Jenney F, et al. Structural genomics of Pyrococcus furiosus: X-ray crystallography reveals 3D domain swapping in rubrerythrin. Proteins. 2004;57:878-82 pubmed publisher
  79. Honarmand Ebrahimi K, Hagedoorn P, Jongejan J, Hagen W. Catalysis of iron core formation in Pyrococcus furiosus ferritin. J Biol Inorg Chem. 2009;14:1265-74 pubmed publisher
    ..Here, we put forth yet another mechanism for the non-heme archaeal 24-meric ferritin from Pyrococcus furiosus in which a stable iron-containing FC acts as a catalytic center for the oxidation of Fe(II), which is ..
  80. Song J, Smith S, Hannon G, Joshua Tor L. Crystal structure of Argonaute and its implications for RISC slicer activity. Science. 2004;305:1434-7 pubmed
    ..Here, we report the crystal structure of the Argonaute protein from Pyrococcus furiosus at 2.25 angstrom resolution...
  81. Krug M, Lee S, Boos W, Diederichs K, Welte W. The three-dimensional structure of TrmB, a transcriptional regulator of dual function in the hyperthermophilic archaeon Pyrococcus furiosus in complex with sucrose. Protein Sci. 2013;22:800-8 pubmed publisher
    ..This suggests that the structure resembles the conformation of TrmB recognizing the pseudopalindromic TM promoter but not the conformation recognizing the nonpalindromic MD promoter...
  82. Kusser A, Bertero M, Naji S, Becker T, Thomm M, Beckmann R, et al. Structure of an archaeal RNA polymerase. J Mol Biol. 2008;376:303-7 pubmed publisher
    ..RNAPs, we determined the cryo-electron microscopic structure of the RNAP from the thermophilic archaeon Pyrococcus furiosus at 13 A resolution...
  83. Ishino S, Ishino Y. Comprehensive search for DNA polymerase in the hyperthermophilic archaeon, Pyrococcus furiosus. Nucleosides Nucleotides Nucleic Acids. 2006;25:681-91 pubmed
    DNA polymerase activities were scanned in a Pyrococcus furiosus cell extract to identify all of the DNA polymerases in this organism...
  84. Hopkins R, Sun J, Jenney F, Chandrayan S, McTernan P, Adams M. Homologous expression of a subcomplex of Pyrococcus furiosus hydrogenase that interacts with pyruvate ferredoxin oxidoreductase. PLoS ONE. 2011;6:e26569 pubmed publisher
    ..As a model system we are using hydrogen-producing Pyrococcus furiosus, which grows optimally at 100°C...
  85. Weinberg M, Schut G, Brehm S, Datta S, Adams M. Cold shock of a hyperthermophilic archaeon: Pyrococcus furiosus exhibits multiple responses to a suboptimal growth temperature with a key role for membrane-bound glycoproteins. J Bacteriol. 2005;187:336-48 pubmed
    The hyperthermophilic archaeon, Pyrococcus furiosus, was grown on maltose near its optimal growth temperature, 95 degrees C, and at the lower end of the temperature range for significant growth, 72 degrees C...