Scheffersomyces stipitis CBS 6054 chromosome 7, complete sequence.
Scheffersomyces stipitis CBS 6054 (Pichia stipitis CBS 6054)
Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Debaryomycetaceae; Scheffersomyces.
Genome sequence of the lignocellulose-bioconverting and xylose-fermenting yeast Pichia stipitis
Submitted (05-JUN-2017) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA
Submitted (12-DEC-2006) US DOE Joint Genome Institute, 2800 Mitchell Drive B100, Walnut Creek, CA 94598-1698, USA
PROVISIONAL REFSEQ: This record has not yet been subject to final\nNCBI review. The reference sequence is identical to CP000501.\nURL -- http://www.jgi.doe.gov/pichia\nJGI Project ID: 3634480\nSource DNA was provided by Jose Laplaza and Thomas Jeffries\n(twjeffri@wisc.edu)\nStock culture is available from Cletus P Kurtzman\n(kurtsman@ncaur.usda.gov)\nContacts: Thomas Jeffries (twjeffri@wisc.edu)\n Paul Richardson (microbes@cuba.jgi-psf.org)\nAnnotation done by JGI-PGF\nManual curation done by the P. stipitis User Community\nFinishing done by JGI-Stanford Human Genome Center\n(www-shgc.stanford.edu)\nUnsure number of repeat copies 254580-295210 and 468090-479400.\nThe finished chromosome has no gaps. The sequence has less than one\nerror in 100,000 bp.\nThe JGI and collaborators endorse the principles for the\ndistribution and use of large scale sequencing data adopted by the\nlarger genome sequencing community and urge users of this data to\nfollow them. It is our intention to publish the work of this\nproject in a timely fashion and we welcome collaborative\ninteraction on the project and analysis.\n(http://www.genome.gov/page.cfm?pageID=10506376).\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: INSDC submitter\nAnnotation Status :: Full annotation\nAnnotation Pipeline :: Eukaryotic Annotation Propagation Pipeline\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
hyphally regulated cell wall protein similar to Candida albicans HYR1, HYR3, HYR5, HYR10
go_function ATP binding; kinase activity; go_process phosphorylation
go_component nucleus; go_function DNA binding; go_process regulation of transcription, DNA-dependent
go_component myosin; go_function motor activity; ATP binding
WD-repeat protein required for cell viability
pyruvate dehydrogenase E1 component, beta subunit (PDH)
beta subunit of pyruvate dehydrogenase (PDH) (E1 beta)
polarity establishment/cellular polarization
involved in polarity establishment/cellular polarization during budding
go_function RNA polymerase II transcription mediator activity; go_component mediator complex; go_process regulation of transcription
Pyruvate carboxylase (Pyruvic carboxylase 1) (PCB 1); go_function ligase activity; catalytic activity; ATP binding; go_process metabolism
Carboxylic acid transporter protein homolog
go_component integral to membrane; go_function transporter activity; go_process transport
Calnexin homolog (CALX); go_function calcium ion binding
RNA polymerase II transcription factor B 73 kDa subunit
go_component membrane; go_function metalloendopeptidase activity; go_process proteolysis and peptidolysis
go_component nucleus; go_function nucleic acid binding; zinc ion binding
go_function cysteine-type endopeptidase activity; ubiquitin thiolesterase activity; go_process ubiquitin-dependent protein catabolism
go_component nucleus; transcription factor complex; go_function RNA polymerase II transcription factor activity; go_process regulation of transcription, DNA-dependent; transcription initiation from RNA polymerase II promoter
general RNA polymerase II transcription factor, TFIIB subunit
involved in pleiotropic drug resistance that forms a ribosome-associated complex similar to HSP70 family
DnaK homolog, interacts with Zuo1p (DnaJ homolog) to form a ribosome-associated complex (RAC) that is bound to the ribosome via the Zuo1p subunit heat shock protein 70 homolog; involved in pleiotropic drug resistance that forms a ribosome-associated complex similar to HSP70 family
go_function catalytic activity; go_process folic acid and derivative biosynthesis
tetrahydrofolate dehydrogenase/cyclohydrolase
go_component nucleus; go_function DNA binding
Frataxin homolog, mitochondrial precursor Contains: Frataxin homolog intermediate form
Has EST support; similar to nitrogen permease reactivator
go_function protein kinase activity; ATP binding; go_process protein amino acid phosphorylation; go_function protein kinase activity; ATP binding; go_process protein amino acid phosphorylation
hyphally regulated cell wall protein Exo-alpha-sialidase
with sequence similarity to with homology
go_function subtilase activity; go_process proteolysis and peptidolysis
Glucose-6-phosphate 1-dehydrogenase (G6PD); go_function glucose-6-phosphate 1-dehydrogenase activity; go_process glucose metabolism
go_function catalytic activity; ATP binding; go_process metabolism; fructose 2,6-bisphosphate metabolism
zinc finger transcription factor; go_component nucleus; go_function nucleic acid binding; zinc ion binding
mitochondrial ribosome small subunit component
hypothetical protein putative xylanase/chitin deacetylase
alpha subunit of RNA polymerase I (RPB1) [EC:2.7.7.6] [KO:K00960]; go_component nucleus; go_function DNA binding; DNA-directed RNA polymerase activity; go_process transcription
Isocitrate dehydrogenase [NAD] subunit 1, mitochondrial precursor (Isocitric dehydrogenase) (NAD(+)-specific ICDH); go_function oxidoreductase activity; go_process metabolism
go_function adenylosuccinate synthase activity; GTP binding; go_process purine nucleotide biosynthesis
Adenylosuccinate synthetase (IMP--aspartate ligase)
Anthranilate synthase component II Includes: Glutamine amidotransferase Indole-3-glycerol phosphate synthase (PRAI)
Anthranilate synthase component II [Includes: Glutamine amidotransferase Indole-3-glycerol phosphate synthase (PRAI)] (TRPG); go_function catalytic activity; indole-3-glycerol-phosphate synthase activity; go_process tryptophan metabolism
go_function hydrolase activity; go_process nucleotide metabolism
go_component membrane; go_function two-component response regulator activity; DNA binding; two-component sensor molecule activity; signal transducer activity; ATP binding; go_process two-component signal transduction system (phosphorelay); regulation of transcription, DNA-dependent; signal transduction
DNA polymerase delta catalytic subunit (DNA polymerase III)
go_function nucleotide binding; DNA binding; DNA-directed DNA polymerase activity; 3'-5' exonuclease activity; go_process DNA replication
go_component intracellular; ribosome; go_function structural constituent of ribosome; go_process protein biosynthesis
go_function actin binding; phospholipid binding
Part of Tps5 polyprotein; 29 other similar fragments in chromosome; go_function DNA binding |3677
Pichia stipitis transposon polyprotein 5 (Tps5) (TCA5)(TDH5) retrotransposon polyprotein
go_function hexokinase activity; ATP binding; go_process glycolysis
go_process intracellular signaling cascade
go_function catalytic activity; go_process metabolism
Has EST support; catalyses the committed step in sphingolipid synthesis, the condensation of serine with palmitoyl-CoA to form 3-ketosphinganine
catalyses the committed step in sphingolipid synthesis, the condensation of serine with palmitoyl-CoA to form 3-ketosphinganine
go_component anaphase-promoting complex; go_process regulation of mitotic metaphase/anaphase transition
go_component membrane; integral to membrane; go_function ATP binding; go_process transport
go_function lyase activity; hydro-lyase activity; go_process metabolism
phosphatidylinositol-4- kinase involved in protein kinase C pathway
go_function phosphotransferase activity, alcohol group as acceptor; inositol or phosphatidylinositol kinase activity
go_function translation initiation factor activity; go_process translational initiation
high-affinity hexose (glucose) transporter
high-affinity hexose (glucose) transporter (HXT1); go_component integral to membrane; go_function transporter activity; go_process transport
go_function oxidoreductase activity; go_process electron transport
Calponin Calponin family repeat; go_component nucleus; go_function nucleic acid binding; zinc ion binding
2-oxoglutarate dehydrogenase complex E2 component
Dihydrolipoamide succinyltransferase (2-oxoglutarate dehydrogenase, E2 subunit); go_function acyltransferase activity; go_process metabolism
Has EST support; contains a pair of redox-active cysteines involved in the transfer of reducing equivalents from the FAD cofactor to the substrate
dihydrolipoamide dehydrogenase; contains a pair of redox-active cysteines involved in the transfer of reducing equivalents from the FAD cofactor to the substrate; go_component cytoplasm; go_function disulfide oxidoreductase activity; oxidoreductase activity; go_process electron transport; go_component cytoplasm; go_function disulfide oxidoreductase activity; oxidoreductase activity; go_process electron transport
mitochondrial 54S ribosomal protein YmL8
go_function oxidoreductase activity; go_process metabolism
mitochondrial 54S ribosomal protein YmL4
go_component nucleus; small nucleolar ribonucleoprotein complex
go_function catalytic activity; nutrient reservoir activity
go_function transaminase activity; go_process biosynthesis
protein serine/threonine kinase activity
Chorismate synthase (5-enolpyruvylshikimate-3-phosphate phospholyase) (AROC); go_component extracellular region; go_function neurohypophyseal hormone activity; chorismate synthase activity; go_process aromatic amino acid family biosynthesis
Endosomal P24B protein precursor (24 kDa endomembrane protein) (Basic 24 kDa late endocytic intermediate component); go_component membrane; go_function protein carrier activity; go_process intracellular protein transport
Aspartate aminotransferase/Glutamic oxaloacetic transaminase AAT2/GOT1; go_function transaminase activity; go_process biosynthesis
structural constituent of ribosome; go_component intracellular; ribosome; go_function structural constituent of ribosome; go_process protein biosynthesis
Serine/threonine protein phosphatase; go_function hydrolase activity
H/ACA ribonucleoprotein complex subunit 3 (Nucleolar protein family A member 3) (snoRNP protein NOP10)
carries out complex cyclization step of squalene to lanosterol in sterol biosynthesis pathway
auxilin-like clathrin-binding protein required for normal clathrin function
Malate synthase 1, glyoxysomal (MAS) (DAL7)
Malate synthase 1, glyoxysomal carbon-catabolite sensitive malate synthase in S. cerevisiae; go_function malate synthase activity; go_process glyoxylate cycle; tricarboxylic acid cycle
involved in vacuolar protein sorting and endocytosis post vesicle internalization
involved in vacuolar protein sorting and endocytosis post vesicle internalization; go_function GTP binding; go_process small GTPase mediated signal transduction; go_function GTP binding; go_process small GTPase mediated signal transduction
go_function protein tyrosine phosphatase activity; go_process protein amino acid dephosphorylation
heat shock protein of the HSP70 family (SSB1) (HSP75)
heat shock protein of the HSP70 family most prevalant transcript on glucose under aerobic conditions
multidrug resistance protein 6 benomyl/methotrexate resistance protein
Pichia stiptis virus 1 PsVirus1 Major viral coat protein GAG1 (MCP) similar to Saccharomyces cerevisiae virus L-A (L1) with sequence similarity to similar
major coat protein/ssRNA-binding protein - IMP dehydrogenase/GMP reductase
Pichia stiptis virus 1 MCP2 1-650 aa: major coat protein 600-end: ssRNA-binding protein - IMP dehydrogenase/GMP reductase
40 kDa farnesylated protein associated with peroxisomes
go_function nucleic acid binding; helicase activity; ATP binding
go_function ubiquitin conjugating enzyme activity; go_process protein modification; ubiquitin cycle
fructose-2,6-bisphosphatase (FBP26) (FRK26); go_function catalytic activity; ATP binding; go_process metabolism; fructose 2,6-bisphosphate metabolism
asymetrically localized transcriptional regulator that controls filamentous growth; go_component nucleus; go_function transcription factor activity; go_process regulation of transcription, DNA-dependent
go_component intracellular; ribosome; go_function structural constituent of ribosome; RNA binding; go_process protein biosynthesis
Regulator of Glucose Repression (transcriptional regulation Mediator complex subunit RGR1; Glucose repression regulatory protein)
transcriptional regulation; affects chromatin structure, transcriptional regulation of diverse genes and sporulation, required for glucose repression, HO repression, RME1 repression and sporulation
go_function protein kinase activity; ATP binding; go_process protein amino acid phosphorylation
fungal transcriptional regulatory protein
hypothetical uncharacterized conserved protein
go_function aldose 1-epimerase activity; go_process galactose metabolism
Myosin-like protein NUF2 (Nuclear filament-containing protein 2) (Nuclear division protein NUF2)
occurs in multiple copies through genome
DMQ mono-oxygenase/Ubiquinone biosynthesis protein COQ7/CLK-1/CAT5
uncharacterized conserved hypothetical protein
carbon catabolite derepressing ser/thr protein kinase
NAD-dependent deacetylase HST3 (Homologous to SIR2 protein 3)
go_component chromatin silencing complex; go_function DNA binding; go_process chromatin silencing; regulation of transcription, DNA-dependent
has roles in both mitochondrial DNA replication and nuclear 5.8S rRNA processing
Similar to SNM1 which has roles in both mitochondrial DNA replication and nuclear 5.8S rRNA processing; Similar to cyclic GMP-binding protein C
putative transcription factor Suppressor protein SEF1 homolog; go_component nucleus; go_function transcription factor activity; zinc ion binding; go_process regulation of transcription, DNA-dependent
go_component integral to membrane; go_function molecular function unknown
RNA polymerase II transcription factor B subunit 3 (RNA polymerase II transcription factor B p38 subunit) (RNA polymerase II transcription factor B 38 kDa subunit)
go_component nucleus; go_process cell cycle
Cytochrome P450 51 (CYPLI) (P450-LIA1) (Sterol 14-alpha demethylase) (Lanosterol 14-alpha demethylase) (P450-14DM)
Exodeoxyribonuclease I (Exonuclease I) (EXO I) (DHS1 protein); go_function nuclease activity; go_process DNA repair
Mitochondrial processing peptidase alpha subunit, mitochondrial precursor (Alpha-MPP)
go_function metalloendopeptidase activity; go_process proteolysis and peptidolysis
Myo1 is a type II myosin, is localized to the actomyosin ring and is important for cytokinesis; go_component myosin; go_function motor activity; ATP binding
go_component nucleus; go_process regulation of cell cycle
mitochondrial 54S ribosomal protein YmL36
F-box protein: endocytic membrane traffic, recycling ReCYcling 1
binds leu-tRNA gene; acts as a repressor at early cell cycle boxes (ECBs) to restrict their activity to the M/G1 phase of the cell cycle
Homeobox; Homeodomain protein that binds leu-tRNA gene. acts as a repressor at early cell cycle boxes (ECBs) to restrict their activity to the M/G1 phase of the cell cycle.; go_component nucleus; go_function DNA binding; transcription factor activity; go_component nucleus; go_function DNA binding; transcription factor activity
Poly(A) polymerase PAPalpha (Polynucleotide adenylyltransferase alpha)
go_function nucleotidyltransferase activity; polynucleotide adenylyltransferase activity; go_process transcription
Phosphatidylinositol 4-kinase PIK1alpha (PI4-kinase)(PtdIns-4-kinase)
catalyzes first step in the biosynthesis of phosphatidylinositol-4,5-biphosphate may control cytokineses through the actin cytoskeleton; go_function phosphotransferase activity, alcohol group as acceptor
Oxysterol binding protein-like protein OBPa
go_component membrane; go_process transport
2nd gene in HAL9 repeat unit, weak similarity to HAL9 factor involved in salt tolerance; go_component nucleus; go_function transcription factor activity; zinc ion binding; DNA binding; go_process regulation of transcription, DNA-dependent; transcription
go_component nucleus; go_function transcription factor activity; zinc ion binding; DNA binding; go_process regulation of transcription, DNA-dependent; transcription
N-terminal part related to RNA:pseudouridine (psi)-synthases C-terminal portion contains the deaminase domain implicated in Riboflavin synthesis; go_function zinc ion binding; hydrolase activity; RNA binding; pseudouridine synthase activity; go_process RNA processing
go_function dihydropteroate synthase activity; 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase activity; dihydroneopterin aldolase activity; go_process folic acid and derivative biosynthesis; folic acid and derivative metabolism
mitochondrial 54S ribosomal protein YmL17/YmL30
Electron transfer flavoprotein ubiquinone oxidoreductase; go_function electron-transferring-flavoprotein dehydrogenase activity; go_process electron transport
Cytochrome c heme lyase (CCHL) (Holocytochrome-C synthase); go_component mitochondrion; go_function holocytochrome-c synthase activity
go_function pseudouridylate synthase activity; go_process RNA processing
go_function GTP binding; GTPase activity
go_function adenosylmethionine decarboxylase activity; go_process spermine biosynthesis; spermidine biosynthesis
ADP,ATP carrier protein (ADP/ATP translocase) (Adenine nucleotide translocator) (ANT)(ADT2); go_component membrane; go_function binding; go_process transport
Drs2 Neo1 Family Adenosinetriphosphatase
GTPase-activating protein for Rsr1p/Bud1p in S. cerevisiae
Beta-glucan synthesis-associated protein
go_component cell wall; go_process beta-1,6 glucan biosynthesis; cell wall organization and biogenesis
multicopper ferro-O2- oxidoreductase; go_function copper ion binding
class E vacuolar-protein sorting and endocytosis factor
Long-chain-fatty-acid--CoA ligase 2 (Long-chain acyl-CoA synthetase 2) (Fatty acid activator 2)
Adenylyl-sulfate kinase (APS kinase) (Adenosine-5'phosphosulfate kinase) (ATP adenosine-5'-phosphosulfate 3'-phosphotransferase)
go_function ATP binding; kinase activity; transferase activity, transferring phosphorus-containing groups; go_process sulfate assimilation
mitochondrial 37S ribosomal protein YmS16
go_function 2-dehydropantoate 2-reductase activity; go_process pyrimidine base metabolism
go_component intracellular; go_function actin binding
Molecular chaperone (DnaJ superfamily); go_process protein folding
go_function oxidoreductase activity; FAD binding; go_process tRNA processing
Reversal of tor2 lethality. Involved in Beta-1,6-glucan synthesis Glucosidase II catalytic (alpha) subunit and related enzymes, glycosyl hydrolase family 31; go_function hydrolase activity, hydrolyzing O-glycosyl compounds; go_process carbohydrate metabolism
go_component intracellular; go_function nuclease activity; go_process DNA repair
Protein with similarity to DNA-binding region of heat shock transcription factors
Sensory transduction histidine kinase; go_component nucleus; go_function two-component response regulator activity; DNA binding; transcription factor activity; go_process two-component signal transduction system (phosphorelay); regulation of transcription, DNA-dependent
Fatty acid synthase subunit beta Includes: 3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase; Enoyl-[acyl-carrier-protein] reductase [NADH]; [Acyl-carrier-protein] acetyltransferase; [Acyl-carrier-protein] malonyltransferase; S-acyl fatty acid synthas
go_component fatty acid synthase complex
Nuclease 1, mitochondrial precursor (NUC1); go_function nucleic acid binding
go_function pepsin A activity; go_process proteolysis and peptidolysis
Glycosyl Phosphatidyl Inositol 17 GPI transamidase complex, GPI17/PIG-S component, involved in glycosylphosphatidylinositol anchor biosynthesis
Leucine rich repeat protein, contains F-box
go_function protein transporter activity; go_component cytoplasm; membrane; go_process intracellular protein transport
go_function GTP binding; go_process cell cycle
go_component membrane; go_process intracellular signaling cascade
go_component ribosome; go_function structural constituent of ribosome; go_process protein biosynthesis
go_process regulation of GTPase activity
Protein involved in the expression of PAPS reductase and sulfite reductase. Also executes last 2 steps in the biosynthesis of sirohaem
go_component eukaryotic translation initiation factor 2B complex; go_function translation initiation factor activity; GTP binding; go_process translational initiation
negative regulator of early meiotic expression
required for growth at alkaline pH and in high concentrations of lithium chloride
aldo/keto reductase [EC:1.1.1.2] [KO:K00002] galactose induced transcript
hypothetical beta-1,6-N-acetylglucosaminyltransferase, contains WSC domain
Mannan polymerase I complex VAN1 subunit (M-pol I subunit VAN1) (Vanadate resistance protein)
Phosphoglucomutase 2 (Glucose phosphomutase 2) (PGM 2); go_function intramolecular transferase activity, phosphotransferases; go_process carbohydrate metabolism
Triosephosphate isomerase (TIM) (Triose-phosphate isomerase)
go_function triose-phosphate isomerase activity; go_process metabolism
eukaryotic translation initiation factor
ubiquitin-40S ribosomal protein S31 fusion protein
NADPH-dependent cinnamyl-alcohol dehydrogenase
go_function methylated-DNA-[protein]-cysteine S-methyltransferase activity; go_process DNA repair
O6-methylguanine DNA repair methyltransferase
Copper Transporter integral membrane protein that functions in high affinity copper transport
go_component integral to membrane; go_function copper ion transporter activity; go_process copper ion transport
go_function transferase activity; go_process metabolism
Phosphoadenosine phosphosulfate reductase
go_function hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides; go_component Golgi membrane; endoplasmic reticulum membrane; integral to membrane; go_process ceramide metabolism
go_function damaged DNA binding; ATP binding; DNA binding; go_process mismatch repair; DNA repair; DNA metabolism
pH-regulated antigen precursor (PRA1)(58 kDa fibrinogen binding mannoprotein)
Zinc-regulated transporter 2 (Low-affinity zinc transport protein ZRT2)
go_function metal ion transporter activity; go_component membrane; go_process metal ion transport
Probable sucrose utilization protein SUC1
Probable sucrose utilization protein SUC1 (MAL33); go_component nucleus; go_function transcription factor activity; zinc ion binding; DNA binding; go_process regulation of transcription, DNA-dependent; transcription
G2-specific serine/threonine protein kinase
Phosphoribosylaminoimidazole-succinocarboxamide synthase (SAICAR synthetase)
go_function phosphoribosylaminoimidazolesuccinocarboxamide synthase activity; go_process purine nucleotide biosynthesis
Exo-alpha-sialidase von Willebrand factor similar to hyphally regulated cell wall protein