Phaeodactylum tricornutum CCAP 1055/1 chromosome 5, whole genome shotgun sequence.
Eukaryota; Stramenopiles; Bacillariophyta; Bacillariophyceae; Bacillariophycidae; Naviculales; Phaeodactylaceae; Phaeodactylum.
The Phaeodactylum genome reveals the evolutionary history of diatom genomes
Submitted (15-JUN-2017) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA
Submitted (12-AUG-2008) 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 CM000608.\nURL -- http://www.jgi.doe.gov/phaeodactylum\nJGI Project ID: 3634397\nContacts: Chris Bowler (cbowler@biologie.ens.fr)\n Igor Grigoriev (ivgrigoriev@lbl.gov)\nThe clone of P. tricornutum that was sequenced is CCAP1055/1 and is\navailable from the Culture collection of Algae and Protozoa\n(http://www.ccap.ac.uk). This clone represents a monoclonal culture\nderived from a fusiform cell in May 2003 from strain CCCP632, which\nwas originally isolated in 1956 off Blackpool (U.K.). It has been\nmaintained in culture continuously in F/2 medium.\nAnnotation was done by the JGI Annotation team and the Diatom\nConsortium.\nChromosomes 3 and 11 are complete and present in GenBank records\nCP001142 and CP001141, respectively.\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)\nAnnotated scaffolds were added in December 2008.\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##
MYT1 is an inhibitory kinase important for controlling the G2-M checkpoint, possibly under stress-conditions
protein containing a MCM domain and belonging to a family of six proteins. They are required for the initiation of eukariotic DNA replication and interact directly with autonomously replicating sequences (ARS). Highly closed to the protein of Thalassiosira thaps1 121353.
Possibly a FAD-dependent oxidoreductase interconverting fumarate and succinate in various pathways, including the citric acid cycle and butanoate metabolism.
protein fucoxanthin chlorophyll a/c protein
homolog to plant SUMO-activating enzyme 2
Members of this family which have been characterized, belong to the small multidrug resistance (Smr) protein family and are integral membrane proteins. They confer resistance to a wide range of toxic compounds by removing them for the cells. The efflux is coupled to an influx of protons.
transmembrane chitin synthase, glycosaminyl transferas
Putative chitin synthase with EST support. Contains glycosaminyl transferase and a transmembrane domain near 3' end which is a characteristic of this gene. It is usually located in the outer membrane and synthesizes an external N-acetyl glucosamine polymer (chitin). Amino acid translation contains active site.
Mnd1 meiotic DNA recombination/cross-over promotion
Mnd1 facilitates interhomolog cross-over formation during meiotic recombination in yeasts and mice. In these organisms, Mnd1 forms a complex with Hop2 (meu13, TBPIP) and interacts with Rad51 and DMC1. Phatr_26706 is closest to Thaps_108214 and both appear to be Mnd1 homologs. However, no homolog of Hop2 was found in Phaeodactylum or Thalassiosira by BLAST using the sequences from yeasts and mouse.
CYP97C1; gene encoding a cytochrome P450 protein known for hydroxylation of epsilon-carotene for the formation of lutein.
Rab-type small GTPase, ortholog of T. pseudonana TPS_31756
regulatory proteasome non-atpase subunit 2
26S proteasome regulatory non ATPase subunit, homolog to plant subunit
E3 subunit of dehydrogenase complex:Dihydrolipoamide-E2+NAD=lipoamide-E2+NADH+H Enzyme involved in TCA cycle, glycolysis, gluconeogenesis, pyruvate, glycine, serine & threonine metabolism.
Probably a aldehyde reductase catalyses alditol + NAD(P)+ = aldose + NAD(P)H + H+ Involved in Pentose and glucuronate interconversions, fructose and mannose metabolism, galactose metabolism, glycerolipid metabolism and pyruvate metabolism
Enzyme involved in the biosynthesis of the N-glycan precursor
Gene of unknown function, expressed under conditins of nitrate depletion; Pt_46318, Gene of unknownn function
Gene of unknown function. Has EST support under several different conditions.; Pt_46325, Gene of unknownn function
enzyme involved in N-Glycan Biosynthesis
casein kinase II catalytic subunit(isoform F)
Has EST support. present: 1 || present: 1
first committed step of the carotenoid biosynthetic pathway; more similar to red algae than to higher plants; chloroplast precursor
Homologous to cupB in Synechocystis PCC6803 essential for the constitutive CO2 uptake system even under high CO2
putative chitinase, with signal peptide and UTR, has glycoside hydrolase family 18 domain and protein translation contains chitinase active site
Hypothetical protein. Appears to be a member of the Multi Antimicrobial Extrusion (MATE) family which functions as drug/sodium antiporters. These proteins mediate resistance to a wide range of cationic dyes, fluroquinolones, aminoglycosides and other structurally diverse antibodies and drugs. MATE proteins are found in bacteria, archaea and eukaryotes. These proteins are predicted to have 12 alpha-helical transmembrane regions.
Aspartate--ammonia ligase (asparagine synthetase) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. The predicted protein has homology with bacterial proteins
dolichyl pyrophosphate Glc1Man9GlcNAc2 alpha-1,3-glucosyltransferase
Involved in the synthesis of N-linked glycans in ER-Golgi network. Transfers the first two of three terminal glucosyl residues to the nascent dolichol phosphate-linked core oligosaccharide, which is composed of 3 glucoses, 9 mannoses, and 2 N-acetylglucosamines.
Formyltetrahydrofolate deformylase most similar to the Cyanobacteria enzyme. Catalyzes 10-formyltetrahydrofolate+H2O =formate+tetrathdrofolate. Also involved in the one carbon pool by folate pathway
Similar to long chain fatty acid elongases. Probably involved in docosahexaenoic acid or eicosapentaenoic acid biosynthesis. Membrane bound, probably ER-targeted.
Possibly an oxidoreductase involved in converting L-ascorbic acid (C6H8O6) to monodehydroascorbic acid (C6H7O6).
44 kDa subunit of RNA polymerase II transcription initiation factor IIH (TFIIH) which is involved in basal transcription and nucleotide excision repair (NER), similar to yeast Supressor of stem-loop protein 1(SSL1)
May be targeted to peroxisomes. Catalyzes the conversion of 2,4-dienoyl-CoA + NADP[H] + [H] to 3-trans-enoyl-CoA + NADP. The conjugated double bonds at positions 2 and 4 of the substrate may be either or both, cis or trans. Involved in fatty acid beta oxidation.
unknown function; Calcium-binding EF-hand; PT-repeat; unknownn protein
cysteine desulfurase for iron-sulfur cluster formation suf
involved in FeS clusters assembly; contains putative ER signal peptide at the N terminus; putatively chloroplast targeted
1-hydroxy-2-methyl-2-(E)-butenyl-4-diphosphate synthase
also called IspG; MEP pathway for isoprenoid biosynthesis; chloroplast precursor
red/far red light photoreceptor putative
Mlh1 is involved in DNA mismatch repair and may interact with Msh4 in meiotic recombination. Phatr_19471 is closest to Thaps_126320 in the Thalassiosira pseudonana genome.; Mlh1) DNA mismatch repair and recombination
A short-chain dehydrogenase probably involved in mitochondrial butanoate metabolism catalyzing the reaction: (S)-3-hydroxyacyl-CoA + NAD+ = 3-oxoacyl-CoA + NADH.
Kinesin-related motor protein required for mitotic spindle assembly and chromosome segregation; Mitotic Centromere Associated Kinesin
contains N-terminal CHASE domain predicted to bind diverse low molecular weight ligands, such as the cytokinin-like adenine derivatives or peptides; contains C-terminal Guanylate cyclase domain and 3'5'-cyclic nucleotide phosphodiesterase domain involved in signal transduction; located in plasmamembrane
cry-dash from the cryptochrome/photolyase family
Cryptochromes are flavoproteins that share sequence similarities to DNA photolyase (a blue light-dependent DNA repairing enzyme) but show no detectable photolyase activity.
n-acetylglucosaminyl phosphatidylinositol deacetylase
A probably hydrolyase which catalyses 6-(N-acetyl-alpha-D-glucosaminyl)-1-phosphatidyl-1D-myo- inositol +H2O =6-(alpha-D-glucosaminyl)-1-phosphatidyl-1D-myo-inositol +acetate. Second step of GPI biosynthesis and glycan structures - biosynthesis 2