Complete genome sequence of the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1 and comparison with Pyrococcus genomes.
Histone and TK0471/TrmBL2 form a novel heterogeneous genome architecture in the hyperthermophilic archaeon Thermococcus kodakarensis.
A comprehensive analysis of the geranylgeranylglyceryl phosphate synthase enzyme family identifies novel members and reveals mechanisms of substrate specificity and quaternary structure organization.
Functional assignment of an enzyme that catalyzes the synthesis of an archaea-type ether lipid in bacteria.
Direct binding of TFEalpha opens DNA binding cleft of RNA polymerase.
The X-ray crystal structure of the euryarchaeal RNA polymerase in an open-clamp configuration.
TK1211 encodes an amino acid racemase towards leucine and methionine in the hyperthermophilic archaeon Thermococcus kodakarensis.
Archaeal type III RuBisCOs function in a pathway for AMP metabolism.
Enzymatic characterization of AMP phosphorylase and ribose-1,5-bisphosphate isomerase functioning in an archaeal AMP metabolic pathway.
Structure analysis of archaeal AMP phosphorylase reveals two unique modes of dimerization.
Dynamic RNA acetylation revealed by quantitative cross-evolutionary mapping.
Among multiple phosphomannomutase gene orthologues, only one gene encodes a protein with phosphoglucomutase and phosphomannomutase activities in Thermococcus kodakaraensis.
Characterization of an archaeal cyclodextrin glucanotransferase with a novel C-terminal domain.
Characterization of a cytosolic NiFe-hydrogenase from the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1.
Crystal structure of highly thermostable glycerol kinase from a hyperthermophilic archaeon in a dimeric form.
Thermostable glycerol kinase from a hyperthermophilic archaeon: gene cloning and characterization of the recombinant enzyme.
Structural study reveals the temperature-dependent conformational flexibility of Tk-PTP, a protein tyrosine phosphatase from Thermococcus kodakaraensis KOD1.
Tk-PTP, protein tyrosine/serine phosphatase from hyperthermophilic archaeon Thermococcus kodakaraensis KOD1: enzymatic characteristics and identification of its substrate proteins.
Presence of a novel phosphopentomutase and a 2-deoxyribose 5-phosphate aldolase reveals a metabolic link between pentoses and central carbon metabolism in the hyperthermophilic archaeon Thermococcus kodakaraensis.
Crystal structures of [NiFe] hydrogenase maturation proteins HypC, HypD, and HypE: insights into cyanation reaction by thiol redox signaling.
Crystal structures of the HypCD complex and the HypCDE ternary complex: transient intermediate complexes during [NiFe] hydrogenase maturation.
Crystal structures of the carbamoylated and cyanated forms of HypE for [NiFe] hydrogenase maturation.
An ornithine omega-aminotransferase required for growth in the absence of exogenous proline in the archaeon Thermococcus kodakarensis.
A novel mechanism for regulating the activity of proliferating cell nuclear antigen by a small protein.
Identification and characterization of an archaeal ketopantoate reductase and its involvement in regulation of coenzyme A biosynthesis.
Acta Crystallogr Sect F Struct Biol Cryst Commun
Acta Crystallogr. F Struct. Biol. Commun.
Structure of the [NiFe]-hydrogenase maturation protein HypF from Thermococcus kodakarensis KOD1.
Unravelling the Adaptation Mechanisms to High Pressure in Proteins.
Crystal structure of a subtilisin homologue, Tk-SP, from Thermococcus kodakaraensis: requirement of a C-terminal beta-jelly roll domain for hyperstability.
Subtilisin-like serine protease from hyperthermophilic archaeon Thermococcus kodakaraensis with N- and C-terminal propeptides.
Architectures of archaeal GINS complexes, essential DNA replication initiation factors.
Atomic structure of an archaeal GAN suggests its dual roles as an exonuclease in DNA repair and a CMG component in DNA replication.
Family D DNA polymerase interacts with GINS to promote CMG-helicase in the archaeal replisome.
Structural and functional analyses of the archaeal tRNA m2G/m22G10 methyltransferase aTrm11 provide mechanistic insights into site specificity of a tRNA methyltransferase that contains common RNA-binding modules.
Aspartyl-tRNA synthetase of the hyperthermophilic archaeon Pyrococcus sp. KOD1 has a chimerical structure of eukaryotic and bacterial enzymes.
Crystal structure of aspartyl-tRNA synthetase from Pyrococcus kodakaraensis KOD: archaeon specificity and catalytic mechanism of adenylate formation.
Evolutionary divergence of the archaeal aspartyl-tRNA synthetases into discriminating and nondiscriminating forms.
Expanding tRNA recognition of a tRNA synthetase by a single amino acid change.
Non-discriminating and discriminating aspartyl-tRNA synthetases differ in the anticodon-binding domain.
Crystal structure of TBP-interacting protein (Tk-TIP26) and implications for its inhibition mechanism of the interaction between TBP and TATA-DNA.
Isolation of TBP-interacting protein (TIP) from a hyperthermophilic archaeon that inhibits the binding of TBP to TATA-DNA.
Reversible RNA phosphorylation stabilizes tRNA for cellular thermotolerance.
Structure of a [NiFe] hydrogenase maturation protease HycI provides insights into its substrate selectivity.
Indolepyruvate ferredoxin oxidoreductase from Pyrococcus sp. KOD1 possesses a mosaic structure showing features of various oxidoreductases.
Analysis of DNA compaction profile and intracellular contents of archaeal histones from Pyrococcus kodakaraensis KOD1.
Structure of histone-based chromatin in Archaea.
Dual biosynthesis pathway for longer-chain polyamines in the hyperthermophilic archaeon Thermococcus kodakarensis.
Dynamic, ligand-dependent conformational change triggers reaction of ribose-1,5-bisphosphate isomerase from Thermococcus kodakarensis KOD1.
An archaeal ADP-dependent serine kinase involved in cysteine biosynthesis and serine metabolism.
Structural study on the reaction mechanism of a free serine kinase involved in cysteine biosynthesis.
Crystal structure of the TK2203 protein from Thermococcus kodakarensis, a putative extradiol dioxygenase.
Identification of a radical SAM enzyme involved in the synthesis of archaeosine.
A membrane-bound archaeal Lon protease displays ATP-independent proteolytic activity towards unfolded proteins and ATP-dependent activity for folded proteins.
Structure and function of the thermostable L-asparaginase from Thermococcus kodakarensis.
Genetic, enzymatic, and structural analyses of phenylalanyl-tRNA synthetase from Thermococcus kodakaraensis KOD1.
Enzymatic and structural characterization of type II isopentenyl diphosphate isomerase from hyperthermophilic archaeon Thermococcus kodakaraensis.
Identification of dephospho-coenzyme A (dephospho-CoA) kinase in Thermococcus kodakarensis and elucidation of the entire CoA biosynthesis pathway in archaea.
A small protein inhibits proliferating cell nuclear antigen by breaking the DNA clamp.
Binding and transport of D-aspartate by the glutamate transporter homolog GltTk.
Coupled binding mechanism of three sodium ions and aspartate in the glutamate transporter homologue GltTk.
Crystal structure of a substrate-free aspartate transporter.
Kinetic mechanism of Na+-coupled aspartate transport catalyzed by GltTk.
Structural Aspects of Photopharmacology: Insight into the Binding of Photoswitchable and Photocaged Inhibitors to the Glutamate Transporter Homologue.
Structural ensemble of a glutamate transporter homologue in lipid nanodisc environment.
Lysine Biosynthesis of Thermococcus kodakarensis with the Capacity to Function as an Ornithine Biosynthetic System.
In vitro stabilization and in vivo solubilization of foreign proteins by the beta subunit of a chaperonin from the hyperthermophilic archaeon Pyrococcus sp. strain KOD1.
Structure and function of the type III pullulan hydrolase from Thermococcus kodakarensis.
The tryptophan biosynthesis gene cluster trpCDEGFBA from Pyrococcus kodakaraensis KOD1 is regulated at the transcriptional level and expressed as a single mRNA.
Characterization and gene deletion analysis of four homologues of group 3 pyridine nucleotide disulfide oxidoreductases from Thermococcus kodakarensis.
TK1299, a highly thermostable NAD(P)H oxidase from Thermococcus kodakaraensis exhibiting higher enzymatic activity with NADPH.
Isolation and characterization of a second subunit of molecular chaperonin from Pyrococcus kodakaraensis KOD1: analysis of an ATPase-deficient mutant enzyme.
A RecA/RAD51 homologue from a hyperthermophilic archaeon retains the major RecA domain only.
Genetic evidence identifying the true gluconeogenic fructose-1,6-bisphosphatase in Thermococcus kodakaraensis and other hyperthermophiles.
A novel candidate for the true fructose-1,6-bisphosphatase in archaea.
Sequence and transcriptional studies of five clustered flagellin genes from hyperthermophilic archaeon Pyrococcus kodakaraensis KOD1.
Biochemical characterization of pantoate kinase, a novel enzyme necessary for coenzyme A biosynthesis in the Archaea.
Pantoate kinase and phosphopantothenate synthetase, two novel enzymes necessary for CoA biosynthesis in the Archaea.
Crystal structure of archaeal ketopantoate reductase complexed with coenzyme a and 2-oxopantoate provides structural insights into feedback regulation.
Crystal structure of ketopantoate reductase from Thermococcus kodakarensis complexed with NADP(+).
An archaeal glutamate decarboxylase homolog functions as an aspartate decarboxylase and is involved in beta-alanine and coenzyme A biosynthesis.
Active subtilisin-like protease from a hyperthermophilic archaeon in a form with a putative prosequence.
Gene cloning and function analysis of replication factor C from Thermococcus kodakaraensis KOD1.
Bifunctional CTP:inositol-1-phosphate cytidylyltransferase/CDP-inositol:inositol-1-phosphate transferase, the key enzyme for di-myo-inositol-phosphate synthesis in several (hyper)thermophiles.
A nomenclature for restriction enzymes, DNA methyltransferases, homing endonucleases and their genes.
Characterization of DNA polymerase from Pyrococcus sp. strain KOD1 and its application to PCR.
Characterization of two intein homing endonucleases encoded in the DNA polymerase gene of Pyrococcus kodakaraensis strain KOD1.
Crystal structure of DNA polymerase from hyperthermophilic archaeon Pyrococcus kodakaraensis KOD1.
Characterization of DNA primase complex isolated from the archaeon, Thermococcus kodakaraensis.
Characterization of a novel glucosamine-6-phosphate deaminase from a hyperthermophilic archaeon.
An archaeal RNA binding protein, FAU-1, is a novel ribonuclease related to rRNA stability in Pyrococcus and Thermococcus.
Catalytic center of an archaeal type 2 ribonuclease H as revealed by X-ray crystallographic and mutational analyses.
Gene cloning and characterization of recombinant RNase HII from a hyperthermophilic archaeon.
Structural basis for peptide recognition by archaeal oligopeptide permease A.
Crystal structure of HypA, a nickel-binding metallochaperone for [NiFe] hydrogenase maturation.
Structural basis of a Ni acquisition cycle for [NiFe] hydrogenase by Ni-metallochaperone HypA and its enhancer.
Structure and function of an ancestral-type beta-decarboxylating dehydrogenase from Thermococcus kodakarensis.
Crystal structure of a novel-type archaeal rubisco with pentagonal symmetry.
Presence of a structurally novel type ribulose-bisphosphate carboxylase/oxygenase in the hyperthermophilic archaeon, Pyrococcus kodakaraensis KOD1.
Ribulose bisphosphate carboxylase/oxygenase from the hyperthermophilic archaeon Pyrococcus kodakaraensis KOD1 is composed solely of large subunits and forms a pentagonal structure.
Structure-based catalytic optimization of a type III Rubisco from a hyperthermophile.
The unique pentagonal structure of an archaeal Rubisco is essential for its high thermostability.
Sequence analysis of glutamate dehydrogenase (GDH) from the hyperthermophilic archaeon Pyrococcus sp. KOD1 and comparison of the enzymatic characteristics of native and recombinant GDHs.
Crystal structures of a [NiFe] hydrogenase large subunit HyhL in an immature state in complex with a Ni chaperone HypA.
A detailed biochemical characterization of phosphopantothenate synthetase, a novel enzyme involved in coenzyme A biosynthesis in the Archaea.
Crystal structure of phosphopantothenate synthetase from Thermococcus kodakarensis.
The structure and activities of the archaeal transcription termination factor Eta detail vulnerabilities of the transcription elongation complex.
Identification of the glucosamine kinase in the chitinolytic pathway of Thermococcus kodakarensis.
Temperature-dependent modulation of farnesyl diphosphate/geranylgeranyl diphosphate synthase from hyperthermophilic archaea.
A DNA ligase from a hyperthermophilic archaeon with unique cofactor specificity.
A unique chitinase with dual active sites and triple substrate binding sites from the hyperthermophilic archaeon Pyrococcus kodakaraensis KOD1.
Crystal structures of chitin binding domains of chitinase from Thermococcus kodakarensis KOD1.
Crystal structures of chitin binding domains of chitinase from Thermococcuskodakarensis KOD1.
Different cleavage specificities of the dual catalytic domains in chitinase from the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1.
Reverse gyrase is not a prerequisite for hyperthermophilic life.
Highly thermostable L-threonine dehydrogenase from the hyperthermophilic archaeon Thermococcus kodakaraensis.
Structure and function of the L-threonine dehydrogenase (TkTDH) from the hyperthermophilic archaeon Thermococcus kodakaraensis.
Identification of a novel aminopropyltransferase involved in the synthesis of branched-chain polyamines in hyperthermophiles.
An uncharacterized member of the ribokinase family in Thermococcus kodakarensis exhibits myo-inositol kinase activity.
Crystal Structure and Product Analysis of an Archaeal myo-Inositol Kinase Reveal Substrate Recognition Mode and 3-OH Phosphorylation.
Characterization of an archaeal malic enzyme from the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1.
Characterization of recombinant glutamine synthetase from the hyperthermophilic archaeon Pyrococcus sp. strain KOD1.
A pentose bisphosphate pathway for nucleoside degradation in Archaea.
Hyperthermostable protein structure maintained by intra and inter-helix ion-pairs in archaeal O6-methylguanine-DNA methyltransferase.
The O6-methylguanine-DNA methyltransferase from the hyperthermophilic archaeon Pyrococcus sp. KOD1: a thermostable repair enzyme.
First characterization of an archaeal GTP-dependent phosphoenolpyruvate carboxykinase from the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1.
Identification and structure of a novel archaeal HypB for [NiFe] hydrogenase maturation.
An abnormally acidic TATA-binding protein from a hyperthermophilic archaeon.
Pk-cdcA encodes a CDC48/VCP homolog in the hyperthermophilic archaeon Pyrococcus kodakaraensis KOD1: transcriptional and enzymatic characterization.
Fructose 1,6-bisphosphate aldolase/phosphatase may be an ancestral gluconeogenic enzyme.
A novel branching enzyme of the GH-57 family in the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1.
Structural basis for branching-enzyme activity of glycoside hydrolase family 57: structure and stability studies of a novel branching enzyme from the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1.
Genetic analysis of DNA repair in the hyperthermophilic archaeon, Thermococcus kodakaraensis.
Characterization of an exo-beta-D-glucosaminidase involved in a novel chitinolytic pathway from the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1.
Concerted action of diacetylchitobiose deacetylase and exo-beta-D-glucosaminidase in a novel chitinolytic pathway in the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1.
The structure of an archaeal beta-glucosaminidase provides insight into glycoside hydrolase evolution.
New archaeal methyltransferases forming 1-methyladenosine or 1-methyladenosine and 1-methylguanosine at position 9 of tRNA.