thermus thermophilus

Summary

Summary: A species of gram-negative, aerobic, rod-shaped bacteria found in hot springs of neutral to alkaline pH, as well as in hot-water heaters.

Top Publications

  1. Agari Y, Kuramitsu S, Shinkai A. Identification of novel genes regulated by the oxidative stress-responsive transcriptional activator SdrP in Thermus thermophilus HB8. FEMS Microbiol Lett. 2010;313:127-34 pubmed publisher
    The stationary phase-dependent regulatory protein (SdrP) from the extremely thermophilic bacterium, Thermus thermophilus HB8, a CRP/FNR family protein, is a transcription activator, whose expression increases in the stationary phase of ..
  2. Fuciños P, Atanes E, López López O, Esperanza Cerdán M, Isabel González Siso M, Pastrana L, et al. Production and characterization of two N-terminal truncated esterases from Thermus thermophilus HB27 in a mesophilic yeast: effect of N-terminus in thermal activity and stability. Protein Expr Purif. 2011;78:120-30 pubmed publisher
    Two N-terminally truncated variants of the esterase E34Tt from Thermus thermophilus HB27 (YP_004875.1) were expressed in Kluyveromyces lactis. Production and biochemical properties of both recombinant proteins were investigated...
  3. Kumar S, Pampa K, Manjula M, Abdoh M, Kunishima N, Lokanath N. Crystal structure studies of NADP+ dependent isocitrate dehydrogenase from Thermus thermophilus exhibiting a novel terminal domain. Biochem Biophys Res Commun. 2014;449:107-13 pubmed publisher
    ..The crystal structure of Thermus thermophilus isocitrate dehydrogenase (TtIDH) ternary complex with citrate and cofactor NADP(+) was determined using X-..
  4. Tiefenbrunn T, Liu W, Chen Y, KATRITCH V, Stout C, Fee J, et al. High resolution structure of the ba3 cytochrome c oxidase from Thermus thermophilus in a lipidic environment. PLoS ONE. 2011;6:e22348 pubmed publisher
    ..this problem, we report wild type and A120F mutant structures of the ba(3)-type cytochrome c oxidase from Thermus thermophilus at 1.8 Å resolution...
  5. Li H, Ji X, Zhou Z, Wang Y, Zhang X. Thermus thermophilus proteins that are differentially expressed in response to growth temperature and their implication in thermoadaptation. J Proteome Res. 2010;9:855-64 pubmed publisher
    ..Our study showed that there existed two types of protein profiles for the thermophile Thermus thermophilus wl in response to temperature change...
  6. Sundaresan R, Ragunathan P, Kuramitsu S, Yokoyama S, Kumarevel T, Ponnuraj K. The structure of putative N-acetyl glutamate kinase from Thermus thermophilus reveals an intermediate active site conformation of the enzyme. Biochem Biophys Res Commun. 2012;420:692-7 pubmed publisher
    ..Here we report the crystal structure of putative N-acetyl glutamate kinase (NAGK) from Thermus thermophilus HB8 (TtNAGK) determined at 1.92Å resolution...
  7. Nakamura T, Kashima Y, Mine S, Oku T, Uegaki K. Characterization and crystal structure of the thermophilic ROK hexokinase from Thermus thermophilus. J Biosci Bioeng. 2012;114:150-4 pubmed publisher
    We characterized and determined the crystal structure of a putative glucokinase/hexokinase from Thermus thermophilus that belongs to the ROK (bacterial repressors, uncharacterized open reading frames, and sugar kinases) family...
  8. Mallik S, Kundu S. A comparison of structural and evolutionary attributes of Escherichia coli and Thermus thermophilus small ribosomal subunits: signatures of thermal adaptation. PLoS ONE. 2013;8:e69898 pubmed publisher
    Here we compare the structural and evolutionary attributes of Thermus thermophilus and Escherichia coli small ribosomal subunits (SSU)...
  9. Neubauer C, Gao Y, Andersen K, Dunham C, Kelley A, Hentschel J, et al. The structural basis for mRNA recognition and cleavage by the ribosome-dependent endonuclease RelE. Cell. 2009;139:1084-95 pubmed publisher
    ..Here, we present crystal structures of E. coli RelE in isolation (2.5 A) and bound to programmed Thermus thermophilus 70S ribosomes before (3.3 A) and after (3.6 A) cleavage...

More Information

Publications94

  1. Larsen L, Rasmussen A, Giessing A, Jogl G, Kirpekar F. Identification and characterization of the Thermus thermophilus 5-methylcytidine (m5C) methyltransferase modifying 23 S ribosomal RNA (rRNA) base C1942. J Biol Chem. 2012;287:27593-600 pubmed publisher
    ..Here, we characterize the modifications of C1942 and C1962 in Thermus thermophilus 23 S rRNA as 5-methylcytidines (m(5)C) and identify the two associated methyltransferases...
  2. Löw C, Neumann P, Tidow H, Weininger U, Haupt C, Friedrich Epler B, et al. Crystal structure determination and functional characterization of the metallochaperone SlyD from Thermus thermophilus. J Mol Biol. 2010;398:375-90 pubmed publisher
    ..X-ray structures derived from three different crystal forms reveal that SlyD from Thermus thermophilus consists of two domains representing two functional units...
  3. Sevostyanova A, Artsimovitch I. Functional analysis of Thermus thermophilus transcription factor NusG. Nucleic Acids Res. 2010;38:7432-45 pubmed publisher
    ..coli system. We wanted to investigate whether Thermus thermophilus (Tth) NusG can be used as a model for structural studies of this family of regulators...
  4. Kishikawa J, Yokoyama K. Reconstitution of vacuolar-type rotary H+-ATPase/synthase from Thermus thermophilus. J Biol Chem. 2012;287:24597-603 pubmed publisher
    Vacuolar-type rotary H(+)-ATPase/synthase (V(o)V(1)) from Thermus thermophilus, composed of nine subunits, A, B, D, F, C, E, G, I, and L, has been reconstituted from individually isolated V(1) (A(3)B(3)D(1)F(1)) and V(o) (C(1)E(2)G(2)I(1)..
  5. Mega R, Manzoku M, Shinkai A, Nakagawa N, Kuramitsu S, Masui R. Very rapid induction of a cold shock protein by temperature downshift in Thermus thermophilus. Biochem Biophys Res Commun. 2010;399:336-40 pubmed publisher
    ..we analyzed the mRNA expression profiles of genes induced immediately following a temperature downshift in Thermus thermophilus HB8. The cold shock protein gene ttcsp2 displayed the most rapid and drastic increase in mRNA...
  6. Nagamatsu Y, Takeda K, Kuranaga T, Numoto N, Miki K. Origin of asymmetry at the intersubunit interfaces of V1-ATPase from Thermus thermophilus. J Mol Biol. 2013;425:2699-708 pubmed publisher
    ..a complete model of the extra-membrane domain of the V-ATPase (V1-ATPase) of a thermophilic bacterium, Thermus thermophilus, consisting of three A subunits, three B subunits, one D subunit, and one F subunit...
  7. Berdygulova Z, Westblade L, Florens L, Koonin E, Chait B, Ramanculov E, et al. Temporal regulation of gene expression of the Thermus thermophilus bacteriophage P23-45. J Mol Biol. 2011;405:125-42 pubmed publisher
    Regulation of gene expression during infection of the thermophilic bacterium Thermus thermophilus HB8 with the bacteriophage P23-45 was investigated...
  8. Roovers M, Oudjama Y, Fislage M, Bujnicki J, Versées W, Droogmans L. The open reading frame TTC1157 of Thermus thermophilus HB27 encodes the methyltransferase forming N²-methylguanosine at position 6 in tRNA. RNA. 2012;18:815-24 pubmed publisher
    N(2)-methylguanosine (m(2)G) is found at position 6 in the acceptor stem of Thermus thermophilus tRNA(Phe). In this article, we describe the cloning, expression, and characterization of the T...
  9. Lau W, Rubinstein J. Subnanometre-resolution structure of the intact Thermus thermophilus H+-driven ATP synthase. Nature. 2011;481:214-8 pubmed publisher
    ..Here we present a 9.7?Å resolution map of the H(+)-driven ATP synthase from Thermus thermophilus obtained by electron cryomicroscopy of single particles in ice...
  10. Korostelev A, Zhu J, Asahara H, Noller H. Recognition of the amber UAG stop codon by release factor RF1. EMBO J. 2010;29:2577-85 pubmed publisher
    ..These findings are consistent with our proposal that structural rearrangements of RF1 and RF2 are critical to accurate translation termination. ..
  11. Palomo M, Pijning T, Booiman T, Dobruchowska J, van der Vlist J, Kralj S, et al. Thermus thermophilus glycoside hydrolase family 57 branching enzyme: crystal structure, mechanism of action, and products formed. J Biol Chem. 2011;286:3520-30 pubmed publisher
    ..Here we describe the cloning and expression of the Thermus thermophilus family GH57-type GBE and report its biochemical properties and crystal structure at 1.35-Å resolution...
  12. Pavlou A, Soulimane T, Pinakoulaki E. Evidence for the presence of two conformations of the heme a3-Cu(B) pocket of cytochrome caa3 from Thermus thermophilus. J Phys Chem B. 2011;115:11455-61 pubmed publisher
    ..Fourier transform infrared (FTIR) difference spectra are reported for the CO-bound caa(3) oxidase from Thermus thermophilus. Two Fe-CO stretching modes at 518 and 507 cm(-1), the Fe-C-O bending mode at 570 cm(-1), and three C-O ..
  13. Alvarez L, Bricio C, Gómez M, Berenguer J. Lateral transfer of the denitrification pathway genes among Thermus thermophilus strains. Appl Environ Microbiol. 2011;77:1352-8 pubmed publisher
    Nitrate respiration is a common and strain-specific property in Thermus thermophilus encoded by the nitrate respiration conjugative element (NCE) that can be laterally transferred by conjugation...
  14. Athavale S, Gossett J, Hsiao C, Bowman J, O Neill E, Hershkovitz E, et al. Domain III of the T. thermophilus 23S rRNA folds independently to a near-native state. RNA. 2012;18:752-8 pubmed publisher
    ..The data presented support previous suggestions that Domain III was added relatively late in ribosomal evolution. ..
  15. Gordiyenko Y, Videler H, Zhou M, McKay A, Fucini P, Biegel E, et al. Mass spectrometry defines the stoichiometry of ribosomal stalk complexes across the phylogenetic tree. Mol Cell Proteomics. 2010;9:1774-83 pubmed publisher
    ..Moreover the ratio of pentameric to heptameric stalk complexes changed during the course of cell growth. We consider these differences in stoichiometry within ribosomal stalk complexes in the context of convergent evolution. ..
  16. Bricio C, Alvarez L, Gómez M, Berenguer J. Partial and complete denitrification in Thermus thermophilus: lessons from genome drafts. Biochem Soc Trans. 2011;39:249-53 pubmed publisher
    ..obtained draft genomic sequences of PD (partial denitrificant) and CD (complete denitrificant) strains of Thermus thermophilus. Their genomes are similar in size to that of the aerobic strains sequenced to date and probably contain a ..
  17. Demeshkina N, Jenner L, Westhof E, Yusupov M, Yusupova G. A new understanding of the decoding principle on the ribosome. Nature. 2012;484:256-9 pubmed publisher
    ..This by itself, or with distortions in the codon-anticodon mini-helix and the anticodon loop, causes the near-cognate tRNA to dissociate from the ribosome. ..
  18. Igari S, Ohtaki A, Yamanaka Y, Sato Y, Yohda M, Odaka M, et al. Properties and crystal structure of methylenetetrahydrofolate reductase from Thermus thermophilus HB8. PLoS ONE. 2011;6:e23716 pubmed publisher
    ..MTHFR from Thermus thermophilus HB8, a homologue of Escherichia coli MetF, has been expressed in E. coli and purified...
  19. Ohtani N, Tomita M, Itaya M. An extreme thermophile, Thermus thermophilus, is a polyploid bacterium. J Bacteriol. 2010;192:5499-505 pubmed publisher
    An extremely thermophilic bacterium, Thermus thermophilus HB8, is one of the model organisms for systems biology. Its genome consists of a chromosome (1.85 Mb), a megaplasmid (0.26 Mb) designated pTT27, and a plasmid (9...
  20. Ng C, Lang K, Meenan N, Sharma A, Kelley A, Kleanthous C, et al. Structural basis for 16S ribosomal RNA cleavage by the cytotoxic domain of colicin E3. Nat Struct Mol Biol. 2010;17:1241-1246 pubmed publisher
    ..These residues activate the 16S rRNA for 2' OH-induced hydrolysis. Conformational changes observed for E3-rRNase, 16S rRNA and helix 69 of 23S rRNA suggest that a dynamic binding platform is required for colicin E3 binding and function. ..
  21. McDonald W, Funatogawa C, Li Y, Szundi I, Chen Y, Fee J, et al. Ligand access to the active site in Thermus thermophilus ba(3) and bovine heart aa(3) cytochrome oxidases. Biochemistry. 2013;52:640-52 pubmed publisher
    ..Using photolabile NO and O(2) carriers, we recently found that NO and O(2) binding in Thermus thermophilus (Tt) ba(3) is ~10 times faster than in the bovine enzyme, indicating that inherent structural differences ..
  22. Averhoff B, Muller V. Exploring research frontiers in microbiology: recent advances in halophilic and thermophilic extremophiles. Res Microbiol. 2010;161:506-14 pubmed publisher
    ..Here, we will describe, for two examples (Thermus thermophilus, Halobacillus halophilus), how thermophilic or halophilic bacteria adapt to their environment; we will ..
  23. Ohnishi T, Nakamaru Ogiso E, Ohnishi S. A new hypothesis on the simultaneous direct and indirect proton pump mechanisms in NADH-quinone oxidoreductase (complex I). FEBS Lett. 2010;584:4131-7 pubmed publisher
    ..We propose a revised hypothesis that each of the "direct" and the "indirect" proton pumps transports 2H(+) per 2e(-). ..
  24. Yamasaki T, Nakazaki Y, Yoshida M, Watanabe Y. Roles of conserved arginines in ATP-binding domains of AAA+ chaperone ClpB from Thermus thermophilus. FEBS J. 2011;278:2395-403 pubmed publisher
    ..Here, we investigated the roles of these arginines (Arg322, Arg323, and Arg747) of ClpB from Thermus thermophilus in the ATPase cycle and chaperone function by alanine substitution...
  25. Zhou M, Morgner N, Barrera N, Politis A, Isaacson S, Matak Vinkovic D, et al. Mass spectrometry of intact V-type ATPases reveals bound lipids and the effects of nucleotide binding. Science. 2011;334:380-385 pubmed publisher
    ..Here we show that rotary adenosine triphosphatases (ATPases)/synthases from Thermus thermophilus and Enterococcus hirae can be maintained intact with membrane and soluble subunit interactions preserved in ..
  26. Goroncy A, Murayama K, Shirouzu M, Kuramitsu S, Kigawa T, Yokoyama S. NMR and X-ray structures of the putative sterol carrier protein 2 from Thermus thermophilus HB8 show conformational changes. J Struct Funct Genomics. 2010;11:247-56 pubmed publisher
    ..structures of the TTHA0401 protein (also designated as TT1886) from the extremely thermophilic bacterium Thermus thermophilus. The NMR structure and the two chain structures (chain A and chain B) of the asymmetric crystallographic ..
  27. Rekittke I, Nonaka T, Wiesner J, Demmer U, Warkentin E, Jomaa H, et al. Structure of the E-1-hydroxy-2-methyl-but-2-enyl-4-diphosphate synthase (GcpE) from Thermus thermophilus. FEBS Lett. 2011;585:447-51 pubmed publisher
    ..the homodimeric [4Fe-4S] cluster carrying E-1-hydroxy-2-methyl-but-2-enyl-4-diphosphate synthase (GcpE) of Thermus thermophilus which catalyzes the penultimate reaction of the MEP pathway and is therefore an attractive target for drug ..
  28. von Ballmoos C, Adelroth P, Gennis R, Brzezinski P. Proton transfer in ba(3) cytochrome c oxidase from Thermus thermophilus. Biochim Biophys Acta. 2012;1817:650-7 pubmed publisher
    ..The B-type oxidases such as, for example, the ba(3) oxidase from Thermus thermophilus, pump protons with a lower stoichiometry of 0...
  29. Radzi Noor M, Soulimane T. Bioenergetics at extreme temperature: Thermus thermophilus ba(3)- and caa(3)-type cytochrome c oxidases. Biochim Biophys Acta. 2012;1817:638-49 pubmed publisher
    Seven years into the completion of the genome sequencing projects of the thermophilic bacterium Thermus thermophilus strains HB8 and HB27, many questions remain on its bioenergetic mechanisms...
  30. Zhou Y, Asahara H, Gaucher E, Chong S. Reconstitution of translation from Thermus thermophilus reveals a minimal set of components sufficient for protein synthesis at high temperatures and functional conservation of modern and ancient translation components. Nucleic Acids Res. 2012;40:7932-45 pubmed publisher
    b>Thermus thermophilus is a thermophilic model organism distantly related to the mesophilic model organism E. coli...
  31. Sakamoto K, Agari Y, Agari K, Kuramitsu S, Shinkai A. Structural and functional characterization of the transcriptional repressor CsoR from Thermus thermophilus HB8. Microbiology. 2010;156:1993-2005 pubmed publisher
    The TTHA1719 gene from Thermus thermophilus HB8 encodes an orthologue of the copper-sensing transcriptional repressor CsoR. X-ray crystal structure analysis of T. thermophilus CsoR indicated that it forms a homotetramer...
  32. Burkhardt J, Vonck J, Averhoff B. Structure and function of PilQ, a secretin of the DNA transporter from the thermophilic bacterium Thermus thermophilus HB27. J Biol Chem. 2011;286:9977-84 pubmed publisher
    ..PilQ of the thermophilic bacterium Thermus thermophilus HB27 is a member of the secretin family required for natural transformation...
  33. Lau W, Rubinstein J. Structure of intact Thermus thermophilus V-ATPase by cryo-EM reveals organization of the membrane-bound V(O) motor. Proc Natl Acad Sci U S A. 2010;107:1367-72 pubmed publisher
    The eubacterium Thermus thermophilus uses a macromolecular assembly closely related to eukaryotic V-ATPase to produce its supply of ATP...
  34. Tani K, Arthur C, Tamakoshi M, Yokoyama K, Mitsuoka K, Fujiyoshi Y, et al. Visualization of two distinct states of disassembly in the bacterial V-ATPase from Thermus thermophilus. Microscopy (Oxf). 2013;62:467-74 pubmed publisher
    ..We analyzed the structure of the V-ATPase from Thermus thermophilus in a single negatively stained two-dimensional (2-D) crystal both by electron tomography and by electron ..
  35. Ishida K, Kunibayashi T, Tomikawa C, Ochi A, Kanai T, Hirata A, et al. Pseudouridine at position 55 in tRNA controls the contents of other modified nucleotides for low-temperature adaptation in the extreme-thermophilic eubacterium Thermus thermophilus. Nucleic Acids Res. 2011;39:2304-18 pubmed publisher
    ..To clarify the role of the ?55 modification, we constructed a truB gene disruptant (?truB) strain of Thermus thermophilus which is an extreme-thermophilic eubacterium...
  36. Tomikawa C, Yokogawa T, Kanai T, Hori H. N7-Methylguanine at position 46 (m7G46) in tRNA from Thermus thermophilus is required for cell viability at high temperatures through a tRNA modification network. Nucleic Acids Res. 2010;38:942-57 pubmed publisher
    ..To clarify the role of this modification, we made a trmB gene disruptant (DeltatrmB) of Thermus thermophilus, an extreme thermophilic eubacterium...
  37. Robin S, Arese M, Forte E, Sarti P, Giuffrè A, Soulimane T. A sulfite respiration pathway from Thermus thermophilus and the key role of newly identified cytochrome c???. J Bacteriol. 2011;193:3988-97 pubmed publisher
    ..Here we describe the existence of an operon in the extreme thermophilic bacterium Thermus thermophilus HB8 encoding both a SOR and a diheme c-type cytochrome...
  38. Demirci H, Larsen L, Hansen T, Rasmussen A, Cadambi A, Gregory S, et al. Multi-site-specific 16S rRNA methyltransferase RsmF from Thermus thermophilus. RNA. 2010;16:1584-96 pubmed publisher
    ..RsmB and RsmF, are responsible for all four 5-methylcytidine (m(5)C) modifications in 16S rRNA of Thermus thermophilus. Like Escherichia coli RsmB, T. thermophilus RsmB produces m(5)C967. In contrast to E...
  39. Sashital D, Jinek M, Doudna J. An RNA-induced conformational change required for CRISPR RNA cleavage by the endoribonuclease Cse3. Nat Struct Mol Biol. 2011;18:680-7 pubmed publisher
    ..These studies provide insight into a catalytically essential RNA recognition mechanism by a large class of CRISPR-related endoRNases...
  40. Nakane S, Ishikawa H, Nakagawa N, Kuramitsu S, Masui R. The structural basis of the kinetic mechanism of a gap-filling X-family DNA polymerase that binds Mg(2+)-dNTP before binding to DNA. J Mol Biol. 2012;417:179-96 pubmed publisher
    ..Here, we show that Thermus thermophilus HB8 PolX (ttPolX) had strong binding affinity for Mg(2+)-dNTPs in the absence of DNA and that it follows a ..
  41. Furuike S, Nakano M, Adachi K, Noji H, Kinosita K, Yokoyama K. Resolving stepping rotation in Thermus thermophilus H(+)-ATPase/synthase with an essentially drag-free probe. Nat Commun. 2011;2:233 pubmed publisher
    ..Here we show at submillisecond resolutions the ATP-driven rotation of isolated V? and the whole V(o)V? from Thermus thermophilus, by attaching a 40-nm gold bead for which viscous drag is almost negligible...
  42. Agari Y, Agari K, Sakamoto K, Kuramitsu S, Shinkai A. TetR-family transcriptional repressor Thermus thermophilus FadR controls fatty acid degradation. Microbiology. 2011;157:1589-601 pubmed publisher
    In the extremely thermophilic bacterium Thermus thermophilus HB8, one of the four TetR-family transcriptional regulators, which we named T...
  43. Shimada A, Masui R, Nakagawa N, Takahata Y, Kim K, Kuramitsu S, et al. A novel single-stranded DNA-specific 3'-5' exonuclease, Thermus thermophilus exonuclease I, is involved in several DNA repair pathways. Nucleic Acids Res. 2010;38:5692-705 pubmed publisher
    ..To understand the cellular function of ssExos in DNA repair better, genes encoding ssExos were disrupted in Thermus thermophilus HB8 that seems to have only a single set of 5'-3' and 3'-5' ssExos unlike other model organisms...
  44. Ratje A, Loerke J, Mikolajka A, Br nner M, Hildebrand P, Starosta A, et al. Head swivel on the ribosome facilitates translocation by means of intra-subunit tRNA hybrid sites. Nature. 2010;468:713-6 pubmed publisher
    ..use multiparticle cryoelectron microscopy analysis to resolve two previously unseen subpopulations within Thermus thermophilus EF-G-ribosome complexes at subnanometre resolution, one of them with a partly translocated tRNA...
  45. Takahata Y, Inoue M, Kim K, Iio Y, Miyamoto M, Masui R, et al. Close proximity of phosphorylation sites to ligand in the phosphoproteome of the extreme thermophile Thermus thermophilus HB8. Proteomics. 2012;12:1414-30 pubmed publisher
    We performed phosphoproteome analysis of proteins from the extremely thermophilic Gram-negative eubacterium Thermus thermophilus HB8 using gel-free mass spectrometric method...
  46. Hsueh K, Westler W, Markley J. NMR investigations of the Rieske protein from Thermus thermophilus support a coupled proton and electron transfer mechanism. J Am Chem Soc. 2010;132:7908-18 pubmed publisher
    ..two ligating histidines (His134 and His154) in the oxidized and reduced states of the Rieske protein from Thermus thermophilus (TtRp) as determined by NMR spectroscopy...
  47. Agari Y, Sakamoto K, Kuramitsu S, Shinkai A. Transcriptional repression mediated by a TetR family protein, PfmR, from Thermus thermophilus HB8. J Bacteriol. 2012;194:4630-41 pubmed publisher
    PfmR is one of four TetR family transcriptional regulators found in the extremely thermophilic bacterium, Thermus thermophilus HB8. We identified three promoters with strong negative regulation by PfmR, both in vivo and in vitro...
  48. Karuppiah V, Hassan D, Saleem M, Derrick J. Structure and oligomerization of the PilC type IV pilus biogenesis protein from Thermus thermophilus. Proteins. 2010;78:2049-57 pubmed publisher
    ..PilC is one of at least a dozen different proteins that are implicated in Type IV pilus assembly in Thermus thermophilus and a member of a conserved family of integral inner membrane proteins which are components of the Type II ..
  49. Bello M, Valderrama B, Serrano Posada H, Rudiño Piñera E. Molecular dynamics of a thermostable multicopper oxidase from Thermus thermophilus HB27: structural differences between the apo and holo forms. PLoS ONE. 2012;7:e40700 pubmed publisher
    ..dynamic (MD) simulations have been performed on Tth-MCO, a hyperthermophilic multicopper oxidase from thermus thermophilus HB27, in the apo as well as the holo form, with the aim of exploring the structural dynamic properties ..
  50. Chen L, Shi K, Yin Z, Aihara H. Structural asymmetry in the Thermus thermophilus RuvC dimer suggests a basis for sequential strand cleavages during Holliday junction resolution. Nucleic Acids Res. 2013;41:648-56 pubmed publisher
    ..symmetrical strand cleavages by RuvC, we performed crystallographic and biochemical analyses of RuvC from Thermus thermophilus (T.th. RuvC). The crystal structure of T.th...
  51. Collins R, Hassan D, Karuppiah V, Thistlethwaite A, Derrick J. Structure and mechanism of the PilF DNA transformation ATPase from Thermus thermophilus. Biochem J. 2013;450:417-25 pubmed publisher
    ..The TtPilF (PilF ATPase from Thermus thermophilus) is required for high transformation efficiency, but its mechanism of action is unknown...
  52. Lee L, Stewart A, Donohoe M, Bernal R, Stock D. The structure of the peripheral stalk of Thermus thermophilus H+-ATPase/synthase. Nat Struct Mol Biol. 2010;17:373-8 pubmed publisher
    ..We have determined the crystal structure of the peripheral stalk of the A-type ATPase/synthase from Thermus thermophilus consisting of subunits E and G...
  53. Agari Y, Sakamoto K, Yutani K, Kuramitsu S, Shinkai A. Structure and function of a TetR family transcriptional regulator, SbtR, from thermus thermophilus HB8. Proteins. 2013;81:1166-78 pubmed publisher
    ..is one of the four TetR family transcriptional regulators present in the extremely thermophilic bacterium, Thermus thermophilus HB8. We identified 10 genes controlled by four promoters with negative regulation by SbtR in vitro...
  54. Gesner E, Schellenberg M, Garside E, George M, Macmillan A. Recognition and maturation of effector RNAs in a CRISPR interference pathway. Nat Struct Mol Biol. 2011;18:688-92 pubmed publisher
    ..Here we describe structural and functional analyses of the Thermus thermophilus CRISPR Cse3 endonuclease...
  55. Kolaj Robin O, O Kane S, Nitschke W, Leger C, Baymann F, Soulimane T. Biochemical and biophysical characterization of succinate: quinone reductase from Thermus thermophilus. Biochim Biophys Acta. 2011;1807:68-79 pubmed publisher
    ..The SQR from the extreme thermophile Thermus thermophilus has been isolated, identified and purified to homogeneity...
  56. Zhou J, Lancaster L, Donohue J, Noller H. Crystal structures of EF-G-ribosome complexes trapped in intermediate states of translocation. Science. 2013;340:1236086 pubmed publisher
    ..These findings provide new insights into the molecular mechanism of ribosomal translocation. ..
  57. Okanishi H, Kim K, Masui R, Kuramitsu S. Acetylome with structural mapping reveals the significance of lysine acetylation in Thermus thermophilus. J Proteome Res. 2013;12:3952-68 pubmed publisher
    ..we identified 197 lysine acetylation sites and 4 N-terminal acetylation sites from 128 proteins in Thermus thermophilus HB8, an extremely thermophilic eubacterium...
  58. Zutz A, Hoffmann J, Hellmich U, Glaubitz C, Ludwig B, Brutschy B, et al. Asymmetric ATP hydrolysis cycle of the heterodimeric multidrug ABC transport complex TmrAB from Thermus thermophilus. J Biol Chem. 2011;286:7104-15 pubmed publisher
    ..The thermophilic gram-negative eubacterium Thermus thermophilus, a model organism for structural genomics and systems biology, discloses ?46 ABC proteins, which are ..
  59. Nakane S, Nakagawa N, Kuramitsu S, Masui R. The role of the PHP domain associated with DNA polymerase X from Thermus thermophilus HB8 in base excision repair. DNA Repair (Amst). 2012;11:906-14 pubmed publisher
    ..We found that the PHP domain of Thermus thermophilus HB8 PolX (ttPolX) functions as two types of phosphoesterase in BER, including a 3'-phosphatase and an ..
  60. Baradaran R, Berrisford J, Minhas G, Sazanov L. Crystal structure of the entire respiratory complex I. Nature. 2013;494:443-8 pubmed publisher
    ..Here, we report the first crystal structure of the entire, intact complex I (from Thermus thermophilus) at 3.3?Å resolution...
  61. Jenner L, Demeshkina N, Yusupova G, Yusupov M. Structural aspects of messenger RNA reading frame maintenance by the ribosome. Nat Struct Mol Biol. 2010;17:555-60 pubmed publisher
    ..These data allow rationalization of how modification deficiencies of ms(2)i(6)A37 in tRNAs may lead to shifts of the translational reading frame...
  62. Sheng G, Zhao H, Wang J, Rao Y, Tian W, Swarts D, et al. Structure-based cleavage mechanism of Thermus thermophilus Argonaute DNA guide strand-mediated DNA target cleavage. Proc Natl Acad Sci U S A. 2014;111:652-7 pubmed publisher
    We report on crystal structures of ternary Thermus thermophilus Argonaute (TtAgo) complexes with 5'-phosphorylated guide DNA and a series of DNA targets...
  63. Mizutani T, Nemoto S, Yoshida M, Watanabe Y. Temperature-dependent regulation of Thermus thermophilus DnaK/DnaJ chaperones by DafA protein. Genes Cells. 2009;14:1405-13 pubmed publisher
    DafA, a unique 8-kDa protein found in Thermus thermophilus, assembles the chaperones DnaK and DnaJ to produce a DnaK(3)-DnaJ(3)-DafA(3) complex (KJA complex)...
  64. Iino H, Shimizu N, Goto M, Ebihara A, Fukui K, Hirotsu K, et al. Crystal structure of the tandem-type universal stress protein TTHA0350 from Thermus thermophilus HB8. J Biochem. 2011;150:295-302 pubmed publisher
    The genome sequence of an extremely thermophilic bacterium, Thermus thermophilus HB8, revealed that TTHA0350 is a tandem-type universal stress protein (Usp) consisting of two Usp domains...
  65. López López O, Fuciños P, Pastrana L, Rúa M, Cerdán M, González Siso M. Heterologous expression of an esterase from Thermus thermophilus HB27 in Saccharomyces cerevisiae. J Biotechnol. 2010;145:226-32 pubmed publisher
    In this work, a system for high-level secretion by Saccharomyces cerevisiae of the Thermus thermophilus HB27 putative esterase YP_004875.1 was constructed. The recombinant protein was purified and partially characterised...
  66. Demirci H, Murphy F, Belardinelli R, Kelley A, Ramakrishnan V, Gregory S, et al. Modification of 16S ribosomal RNA by the KsgA methyltransferase restructures the 30S subunit to optimize ribosome function. RNA. 2010;16:2319-24 pubmed publisher
    ..Here, we present the X-ray crystal structure of the Thermus thermophilus 30S ribosomal subunit lacking these dimethylations...
  67. Maher M, Akimoto S, Iwata M, Nagata K, Hori Y, Yoshida M, et al. Crystal structure of A3B3 complex of V-ATPase from Thermus thermophilus. EMBO J. 2009;28:3771-9 pubmed publisher
    ..In the catalytic interface, our mutational analysis, on the basis of the A(3)B(3) structure, has highlighted the presence of a cluster composed of key hydrophobic residues, which are essential for ATP hydrolysis by V-ATPases...
  68. Saks M, Sanderson L, Choi D, Crosby C, Uhlenbeck O. Functional consequences of T-stem mutations in E. coli tRNAThrUGU in vitro and in vivo. RNA. 2011;17:1038-47 pubmed publisher
    ..coli tRNA(Thr)(UGU) were compared with similar data obtained previously for several aa-tRNAs binding to Thermus thermophilus EF-Tu...
  69. Juranek S, Eban T, Altuvia Y, Brown M, Morozov P, Tuschl T, et al. A genome-wide view of the expression and processing patterns of Thermus thermophilus HB8 CRISPR RNAs. RNA. 2012;18:783-94 pubmed publisher
    ..We characterized the expression and processing patterns of Thermus thermophilus HB8 CRISPRs by using differential deep-sequencing, which differentiates between 5' monophosphate and 5' non-..
  70. Pantazaki A, Dimopoulou M, Simou O, Pritsa A. Sunflower seed oil and oleic acid utilization for the production of rhamnolipids by Thermus thermophilus HB8. Appl Microbiol Biotechnol. 2010;88:939-51 pubmed publisher
    The potential production of rhamnolipids was demonstrated using the thermophilic eubacterium Thermus thermophilus HB8 and sunflower seed oil or oleic acid as carbon sources...
  71. Smirnova I, Reimann J, von Ballmoos C, Chang H, Gennis R, Fee J, et al. Functional role of Thr-312 and Thr-315 in the proton-transfer pathway in ba3 Cytochrome c oxidase from Thermus thermophilus. Biochemistry. 2010;49:7033-9 pubmed publisher
    Cytochrome ba(3) from Thermus thermophilus is a member of the family of B-type heme-copper oxidases, which have a low degree of sequence homology to the well-studied mitochondrial-like A-type enzymes...
  72. Liu B, Zhang Y, Sage J, Soltis S, Doukov T, Chen Y, et al. Structural changes that occur upon photolysis of the Fe(II)(a3)-CO complex in the cytochrome ba(3)-oxidase of Thermus thermophilus: a combined X-ray crystallographic and infrared spectral study demonstrates CO binding to Cu(B). Biochim Biophys Acta. 2012;1817:658-65 pubmed publisher
    ..Crystal structures of CO-bound cytochrome ba(3)-oxidase from Thermus thermophilus, determined at ~2.8-3.2Å resolution, reveal a Fe-C distance of ~2.0Å, a Cu-O distance of 2...
  73. Efremov R, Baradaran R, Sazanov L. The architecture of respiratory complex I. Nature. 2010;465:441-5 pubmed publisher
    ..Furthermore, we have determined the structure of the entire complex I from Thermus thermophilus at 4.5 A resolution...
  74. Ye X, Honda K, Sakai T, Okano K, Omasa T, Hirota R, et al. Synthetic metabolic engineering-a novel, simple technology for designing a chimeric metabolic pathway. Microb Cell Fact. 2012;11:120 pubmed publisher
    ..By rationally combining those modules together, artificial synthetic pathways specialized for chemical manufacturing could be designed and constructed...
  75. Hayashi K, Ueno H, Iino R, Noji H. Fluctuation theorem applied to F1-ATPase. Phys Rev Lett. 2010;104:218103 pubmed
    ..We found that FT provided the better estimation of the rotary torque of F1 than the conventional method...
  76. Sevostyanova A, Belogurov G, Mooney R, Landick R, Artsimovitch I. The ? subunit gate loop is required for RNA polymerase modification by RfaH and NusG. Mol Cell. 2011;43:253-62 pubmed publisher
    ..We show that contacts with the gate loop are also required for antipausing by NusG and propose that most NusG homologs use similar mechanisms to increase RNAP processivity...
  77. Karuppiah V, Derrick J. Structure of the PilM-PilN inner membrane type IV pilus biogenesis complex from Thermus thermophilus. J Biol Chem. 2011;286:24434-42 pubmed publisher
    ..crystal structure of a complex between a cytoplasmic component of the type IV pilus biogenesis system from Thermus thermophilus, PilM, in complex with a peptide derived from the cytoplasmic portion of the inner membrane protein PilN...
  78. Bagautdinov B, Yutani K. Structure of indole-3-glycerol phosphate synthase from Thermus thermophilus HB8: implications for thermal stability. Acta Crystallogr D Biol Crystallogr. 2011;67:1054-64 pubmed publisher
    ..three-dimensional structure of indole-3-glycerol phosphate synthase (IGPS) from the thermophilic bacterium Thermus thermophilus HB8 (TtIGPS) has been determined at 1.8 Å resolution...
  79. Schwab T, Sterner R. Stabilization of a metabolic enzyme by library selection in Thermus thermophilus. Chembiochem. 2011;12:1581-8 pubmed publisher
    ..of random mutagenesis and metabolic library selection using the extremely thermophilic bacterium Thermus thermophilus as host...
  80. Del Giudice I, Limauro D, Pedone E, Bartolucci S, Fiorentino G. A novel arsenate reductase from the bacterium Thermus thermophilus HB27: its role in arsenic detoxification. Biochim Biophys Acta. 2013;1834:2071-9 pubmed publisher
    ..In this study, we investigated the mechanisms of arsenic resistance in the thermophilic bacterium Thermus thermophilus HB27...
  81. Rose I, Biukovic G, Aderhold P, Muller V, Gruber G, Averhoff B. Identification and characterization of a unique, zinc-containing transport ATPase essential for natural transformation in Thermus thermophilus HB27. Extremophiles. 2011;15:191-202 pubmed publisher
    b>Thermus thermophilus is a model strain to unravel the molecular basis of horizontal gene transfer in hot environments...
  82. Ochi A, Makabe K, Kuwajima K, Hori H. Flexible recognition of the tRNA G18 methylation target site by TrmH methyltransferase through first binding and induced fit processes. J Biol Chem. 2010;285:9018-29 pubmed publisher
    ..We investigated the recognition mechanism of Thermus thermophilus TrmH for its guanosine target...
  83. Liu J, Yin M, Zhu H, Lu J, Cui Z. Purification and characterization of a hyperthermostable Mn-superoxide dismutase from Thermus thermophilus HB27. Extremophiles. 2011;15:221-6 pubmed publisher
    ..In the present study, a Mn-containing superoxide dismutase of the hyperthermophilic Thermus thermophilus HB27 had been purified and characterized by a two-stage ultrafiltration process after being expressed in E...
  84. Staals R, Agari Y, Maki Yonekura S, Zhu Y, Taylor D, van Duijn E, et al. Structure and activity of the RNA-targeting Type III-B CRISPR-Cas complex of Thermus thermophilus. Mol Cell. 2013;52:135-145 pubmed publisher
    ..The Type III-B CRISPR-Cas system of the bacterium Thermus thermophilus, the TtCmr complex, is composed of six different protein subunits (Cmr1-6) and one crRNA with a ..
  85. Honda K, Maya S, Omasa T, Hirota R, Kuroda A, Ohtake H. Production of 2-deoxyribose 5-phosphate from fructose to demonstrate a potential of artificial bio-synthetic pathway using thermophilic enzymes. J Biotechnol. 2010;148:204-7 pubmed publisher
    Six thermophilic enzymes from Thermus thermophilus were used to construct an 'artificial bio-synthetic pathway' for the production of 2-deoxyribose 5-phosphate from fructose...