Thalassiosira pseudonana CCMP1335 chromosome 6, whole genome shotgun sequence.
Eukaryota; Stramenopiles; Bacillariophyta; Coscinodiscophyceae; Thalassiosirophycidae; Thalassiosirales; Thalassiosiraceae; Thalassiosira.
The Phaeodactylum genome reveals the evolutionary history of diatom genomes
The genome of the diatom Thalassiosira pseudonana: ecology, evolution, and metabolism
Submitted (15-JUN-2017) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA
Submitted (18-SEP-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 CM000643.\nURL -- http://www.jgi.doe.gov/thalassiosira\nJGI Project ID: 2662235\nContacts: E. Virginia Armbrust (armbrust@u.washington.edu)\n Igor Grigoriev (ivgrigoriev@lbl.gov)\nThe clone of P. pseudonana that was sequenced is CCMP1335 and is\navailable from the Center for Culture of Marine Phytoplankton\n(http://ccmp.bigelow.org). This clone was collected in 1958 from\nMoriches Bay (Long Island, New York) and has been maintained\ncontinuously in culture.\nAnnotation was done by the JGI Annotation team and the Diatom\nConsortium.\nChromosomes 7 and 18 are complete and present in GenBank records\nCP001160 and CP001159, 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 January 2009.\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##
P-type (or E1-E2-type) ATPases constitute a superfamily of cation transport enzymes, present both in prokaryota and eukaryota, whose members mediate membrane flux of all common biologically relevant cations
ubiquitin-conjugating enzyme similar to putative protein GB:CAB43411 [Arabidopsis thaliana];(model%: 97, hit%: 85, score: 393, %id: 51) [Arabidopsis thaliana], strong domain similarities; E2
DNA directed RNA polymerase i, alpha subunit
based on sequence similarity, EST support from T. psuedonana, and the presence of deoxyhypusine synthase domain suggests involved in post translational modification of hypusine in the eukaryotic initiation factor 5A
Member of cryptochrome/(6-4) DNA photolyase family. CRY and photolyases are highly related proteins. Cryptochromes are blue light photoreceptors, photolyases are DNA repair enzymes. Cryptochromes are also involved in regulation of circadian rhythms. Animal cryptochromes are typically derived from 6-4 photolyases, plant Crys are typically derived from CPD photolyases. Impossible to assess whether it is a CRY or photolyase without experimental data.
mitochondrial carnitine/acylcarnitine carrier protein
based on sequence similarity, EST support, and presence of mitochondrial carrier protein domain
No reasonable similarity to any known sequences.; hypothetical gene
Excellent similarity to known cell differentiation protein sequences. Nearly complete Phaeodactylum cDNA support.
Partial Phaeodactylum cDNA support. No reasonable similarity to any known sequences.; hypothetical gene
putative protein of unknown function based on Phaeodactylum EST support and limited sequence similarity; putative protein of unknown function
Exhibits very high similarity to unknown proteins/hypothetical genes from Arabidopsis, Synechocystis, Guilardia; unknown protein
Similar to mutator protein from Methanothermobacter and hypothetical proteins from Arabidopsis, Pseudomonas, Thauera, Ralstonia. Probable Nudix-Nudix domain.; unknown protein
Very distant similarity to hypothetical gene sequences from Xylella, Pseudomonas, Yersinia, Anopheles. Partial cDNA support.; unknown protein
Guanylate and adenylate cyclases catalyze the formation of cyclic GMP(cGMP) from GTP and cAMP from ATP, respectively. cGMP and cAMP are common second messengers.
Distant similarity to sensor protein fixL.; hypothetical gene
Good similarity to the FixL-related histidine kinase sequence for Sinorhizobium.
Supported by complete cDNA and good similarity to known sequences; probable partial adenosylhomocysteinase
putative protein similar to severin and fragmin a
Contains a region of similarity to sequence for protein c21orf59.; hypothetical gene
No similarity to any known sequences. Complete cDNA support.; unknown protein
based on sequence similarity to bacterial xanthine phosphoribosyltransferases and presence of phosphoribosyl transferase domain
No similarity to any known sequences. Partial cDNA support.; unknown protein
MYB DNA binding protein/ transcription factor-like protein
Member of MYB DNA binding protein/ transcription factor family.
Putative protein of unknown function, with similarities to psedouridylate synthase (pseudouridine synthase) (uracil hydrolase); similar to gi|15230232|ref|NP_191274.1| (NM_115574) putative protein; protein id: At3g57150.1, (model%: 100, hit%: 84, score: 1631, %id: 67) [Arabidopsis thaliana]; EST support; putative protein of unknown function, with similarity to psedouridylate synthase
Exhibits a region of high similarity to CTL1 protein from Torpedo and a hypothetical protein from Macaca.; unknown protein
No reasonable similarity to any known sequences. Complete cDNA support.; unknown protein
No reasonable similarity to any known sequences. Some distant regional similarity to an unknown Caenorhabditis protein.; hypothetical gene
Contains a region of high similarity to acylaminoacyl peptidase (N-acylaminoacyl-peptide hydrolase, acyl-peptide hydrolase, acylamino-acid-releasing enzyme).; hypothetical gene with similarity to acylaminoacyl peptidase
Fair sequence similarity to disulfide bond formation protein, oxidoreductin, unknown proteins.; hypothetical gene
Identification supported by fair sequence similarity. Part of the citric acid cycle.
ascorbate peroxidase (stromal). It was blasted with the lumenal ascorbate peroxidase of Arabidopsis, but the best hits are to thylakoid-bound (i.e.stroma side) Apx's. No sign of a thylakoidal targeting motif.
sec1-like domain protein; syntaxin-binding protein 1, STXBP1); Hunc18; rbSec1
Synonym(s): Suvar3-9, Enhancer-of-zeste, TrithoraxSeveral proteins that contribute to epigenetic mechanisms of gene regulation contain a characteristic 130 amino acid motif of unknown function called the SET domain. The SET domain genes are widely represented in the eukaryotic genomes, and proteins were initially distributed into four families, SU(VAR)3-9, E(Z), ASH1 and TRITHORAX based on the homology of their SET domains. Addtional proteins have now been identified which do not fit into this classification [PMID: 12039029].The SET domain is mainly found in proteins with multi-cellular functions, although some exceptions to this are found in yeasts. It appears to be a protein-protein interaction domain, however histone-specific methylase activity has been associated with the SET-domain of SU(VAR)3-9 family members. It has been demonstrated that association of SET domain and myotubularin-related proteins modulates growth control. The SET domain containing Drosophila protein, enhancer of zeste, has a function in segment determination and the mammalian homologue may be involved in the regulation of gene transcription and chromatin structure.
DNA directed RNA polymerase II, second largest subunit
Protein prenyltransferases catalyze the transfer of an isoprenyl moiety to a cysteine four residues from the C-terminus of several proteins. They are heterodimeric enzymes consisting of alpha and beta subunits. The alpha subunit is thought to participate in a stable complex with the isoprenyl substrate; the beta subunit binds the peptide substrate. Both the alpha and beta subunit show repetitive sequence motifs. These repeats have distinct structural and functional implications and are unrelated to each other. Known protein prenyltransferase alpha subunits are the mammalian protein farnesyltransferase alpha subunit, yeast protein RAM2, a protein farnesyltransferase alpha subunit and yeast protein BET4, a protein geranylgeranyltransferase alpha subunit.
No similarity to any known sequences.; hypothetical gene
Hypothetical gene vaguely similar to an 'unknown protein similar to ribonuclease inhibitor; hypothetical gene
This enzyme is one of four component proteins of the enzyme glycine decarboxylase. Coupled with serine hydroxymethytransferase, this complex generates serine from two glycine. This reaction is part of the photorespiratory pathway (glycolate metabolism). Reaction occurs in the mitochondria.
The WD40 repeat motif is about 40 residues long, and contains a central Trp-Asp motif. Such a repetitive segment has been shown to exist in a number of proteins, including G-beta-like peptides, yeast STE4, MSI1, CDC4, CDC20, MAK11, PRP4, PWP1 and TUP1, slime-mold AAC3 and coronin, and Drosophila Groucho protein. The number of repeats within these proteins varies between 5 (PRP4, TUP1, and Groucho) and 8 (G-beta, STE4, MSI1, AAC3, CDC4, PWP1, etc.). In G-beta and G-beta like proteins, the repeats span the entire length of the sequence, while in other proteins, they make up the N-terminal, the central or the C-terminal section.
Very distantly similar to ribosome-binding factor A. Partial cDNA support.; unknown protein
Identification based on similarity to known sequences.
Fair similarity to FKBP-type peptidyl-prolyl cis-trans isomerase sequences.; hypothetical gene
Excellent similarity to known sequences. Complete and abundant cDNA support.
Putative protein of unknown function with some similarities to hypersensitive response-induced proteins; see gi|23345042|gb|AAN17462.1| (AY137511) hypersensitive-induced reaction protein 1 [Hordeum vulgare subsp. vulgare] (model%: 97, hit%: 86, score: 515, %id: 42) [Hordeum vulgare subsp. vulgare]; putative protein of unknown function with some similarity to hypersensitive response-induced proteins
SWI/SNF related, matrix associated, actin dependent regulator of chromatin, atpase-like protein
good alignment with other organisms (44% identity over 500 amino acids). contains conserved SNF2 related domain (IPR000330) and helicase C term domain (IPR001650) and DEAD/DEAH box helicase domain (IPR001410).
D-glyceraldehyde 3-phosphate = glycerone phosphate; putative
26S proteasome regulatory particle non-ATPase subunit8 [Oryza sativa (japonica cultivar-group)] (model%: 100, hit%: 91, score: 771, %id: 54) [Oryza sativa (japonica cultivar-group)]; RPN8
based on sequence similarity and presence of prefoldin domain likely acts as stabilising chaperone; vhl binding protein-1, chaperone
based on sequence similarity to glycotransferase from Dictyostelium; putative protein with similarity to glycotransferase GNT51
supported by a Thaps cDNA; putative protein containing similarity to unknown peptides
DNA repair, needed for cleaving the flap strands, also a DS DNA nucleaseContains the N and the I domain
in addition to CASEY annotation: the protein may be chloroplast targeted. If extended at the N-terminus (36 aa upstream), there is a putative ER signal peptide predicted by SignalP (probability 0.995; cleavage site between pos. 21 and 22: ASA-FV). Sequence resembling short (6 aa) chloroplast transit peptide follow the ER signal sequence. However, the initial methionine is difficult to find because of number of possible introns.
contains a sodium:solute symporter domain
RL22, ribosomal protein 22 60S large ribosomal subunit
RL22, ribosomal protein 22, 60S large ribosomal subunit, nuclear, translation, protein biosynthesis
L7Ae, ribosomal protein 7Ae 60S large ribosomal subunit
L7Ae,ribosomal protein 7Ae, 60S large ribosomal subunit, nuclear, translation, protein biosynthesis
Reaction catalyzed:ATP + 3-phospho-D-glycerate = ADP + 3-phospho-D-glyceroyl phosphate; putative
Putative protein of unknown function with similarities to lysophospholipases; e.g. gi|16945402|emb|CAC10084.2| (AL442164) related to lysophospholipase [Neurospora crassa] (model%: 64, hit%: 91, score: 240, %id: 29) [Neurospora crassa]; putative protein of unknown function with similarity to lysophospholipases
This gene has no EST support. It does contain InterPro domain #IPR002016 and similaritiy to Pfam model #PF00141 for peroxidases. The best hits to this protein (score of 300) were to peroxisomal/glyoxysomal ascorbate peroxidases from higher plants.
26S proteasome ATPase regulatory subunit
26S proteasome AAA-ATPase subunit RPT5a identical to GB:AAF22525 from [Arabidopsis thaliana]; supported by cDNA: gi_5669046_gb_AF081573.1_AF081573
20S proteasome subunit alpha type 1; supported by full-length cDNA: Ceres: 12455. (model%: 76, hit%: 92, score: 628, %id: 49) [Arabidopsis thaliana]
protein kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. There are a number of conserved regions in the catalytic domain of protein kinases.; putative protein kinase containing cyclic-nucleotide domain
Putative trypsin-like serine protease, similar to gi|16329387|ref|NP_440115.1| (NC_000911) protease; HhoA [Synechocystis sp. PCC 6803] (model%: 97, hit%: 71, score: 571, %id: 43) [Synechocystis sp. PCC 6803]
Histones can be reversibly acetylated on several lysine residues. Regulation of transcription is caused in part by this mechanism. Histone deacetylases catalyse the removal of the acetyl group. Histone deacetylases, acetoin utilization proteins and acetylpolyamine amidohydrolases are all members of this ancient protein superfamily
Putative protein of unknown function, with aminopeptidase domains, similar to MOP9.8 dipeptidyl peptidase IV-like protein (model%: 88, hit%: 74, score: 1069, %id: 41) [Arabidopsis thaliana]; putative protein of unknown function, with aminopeptidase domains
similar to TOM70, translocase of outer mitochondrial membrane
TPS_98184 is significantly homologous over a short segment to heterotrophic bacterial 26S regulatory proteases.The model also contains a predicted ATP/GTP binding domain.
mannosyl-oligosaccharide alpha-mannosidase
involved in N-glycan processing in the endolpasmic reticulum
Contains regions of similarity to various helicases.; hypothetical gene
based on sequence similarity to hypothetical proteins from metazoa and fungi; hypothetical protein of unknown function
Putative disease-resistance protein, containing leucine-rich repeat domains; some homology to TOLL-like receptor; e.g. gi|1184077|gb|AAC15780.1| Cf-2.2 [Lycopersicon pimpinellifolium] (model%: 99, hit%: 35, score: 470, %id: 33) [Lycopersicon pimpinellifolium]; putative disease-resistance protein, containing leucine-rich repeat domains; some homology to toll-like receptor
vascular plant-like receptor-like protein kinase
TPS_109064 is significanlty homologous over a very short segment of about 70 amino acidsto receptor-like protein kinases in vascular plants. Some of these appear to be related to disease resistance. Also there is a predicted leucine rich repeat region. Leucine-rich repeats (LRRs) are 20-29-residue sequence motifs presentin tandem arrays a number of proteins with diverse functions, such as hormone receptor interactions, enzymeinhibition, cell adhesion and cellular trafficking. A number of recent studies revealed theinvolvement of LRR proteins in early mammalian development, neural development, cell polarization, regulation of gene expression and apoptosis signalling. It was shown that LRRs may be critical to the morphology and dynamics of cytoskeleton. The primary function of these motifs appears to be to provide a versatile structural framework for the formation of protein-protein interactions.
hypothetical protein, similar to sulfer deprivation response regulators
based on sequence similarity to nuclear pore complex protein; putative protein of unknown function
supported by cDNAs; putative protein of unknown function
A number of uncharacterized proteins share regions of similarities. These include, Yeast hypothetical protein YBR187w. Fission yeast hypothetical protein SpAC17G8.08c. Mouse protein pFT27. Synechocystis strain PCC 6803 hypothetical protein sll0615. These are hydrophobic proteins of 200 to 320 amino acids that seem to contain six or seven transmembrane domains.
similar to ubiquitin-conjugating enzyme, putative; protein id: At5g25760.1. [Arabidopsis thaliana] (model%: 100, hit%: 90, score: 429, %id: 55) [Arabidopsis thaliana]; EST support; E2
Combines L-aspartate and carbamoyl phosphate to form N-carbamoyl aspartate; part of aspartate metabolic pathway
supported by cDNAs; hypothetical protein of unknown function containing distant similarity to dentin sialophosphoprotein precursor gi|17865470|
t-complex chaperonin protein, epsilon subunit
Chaperone/heat shock protein belonging to the HSP60 family. No EST support
Putative heat shock protein most similar to At3g47940-68298.m04471 T17F15.190 heat shock protein-like protein heat-shock protein hsp40, Homo sapiens, PIR2:JN0912 with an evalue of 2e-11. It also contains InterPro domain #IPR001623, which is a DnaJ N-terminal domain. Also contains reasonable similarity to Pfam model #PF00226 for a DnaJ domain.
based on sequence similarity, presence of chromate transporter domain, and EST support
putative protein of unknown function that contains 4 CBS domains; putative protein unknown function containing CBS domains
supported by cDNAs; hypothetical protein with distant similarity to proteins of unknown function
Putative trypsin-like serine protease; EST support
IKI3, homolog to yeast IKI3; confers sensitivity to killer toxin
DNA polymerase, similar to Oryza sativa delta catalytic subunit and DNA polymerase III of Arabadopsis
similar to conserved prokaryotic proteins; hypothetical protein
Nexins bind to the cytoplasmic domain of plasma membrane receptors and are involved in endocytic protein trafficking
RS24, ribosomal protein 24 40S small ribosomal subunit
RS24, ribosomal protein 24, 40S small ribosomal subunit, nuclear, translation, protein biosynthesis
biotin synthase, biotin synthetase, biotin synthesis
Mutual best in genome to Arabidopsis. SP:P54887:P5C1_ARATH; supported by cDNA: gi_1532270_dbj_D32138.1_ATHATP5CS (model%: 99, hit%: 98, score: 1547, %id: 47)
contains bipartite plastid targeting presequence with conserved motif at signal peptide cleavage site
Reaction catalyzed: dTDP-glucose = dTDP-4-dehydro-6-deoxy-D-glucose + H2O. Note, requires NAD.; putative; thymidine diphosphoglucose oxidoreductase
based on sequence similarity to hypothetical proteins from metazoans; putative protein of unknown function
probable beta-ketoacyl-acyl carrier protein synthase
in addition to CASEY annotation. Looks like targeted to mitochndrion. N-terminus contains putative mitochondrial leader predicted by TargetP (probability 0.947; lenght 23 aa - MCRRRTLSFILGKRYICTTRRRV). Plastid targeted homologue also found in Thaps (see grail.17.51.1)
contains Transcription initiation factor TFIID subunit and Proline-rich domains; supported by a cDNA; hypothetical protein with distant similarity to unknown proteins
RS26, ribosomal protein 26 40S small ribosomal subunit
RS26, ribosomal protein 26, 40S small ribosomal subunit, nuclear, translation, protein biosynthesis
involved intracellular vesicle trafficking;subunit of protein complex that coats golgi vesicles
protein kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. There are a number of conserved regions in the catalytic domain of protein kinases. In the N-terminal extremity of the catalytic domain there is a glycine-rich stretch of residues in the vicinity of a lysine residue, which has been shown to be involved in ATP binding. In the central part of the catalytic domain there is a conserved aspartic acid residue which is important for the catalytic activity of the enzyme.; putative protein kinase
[CATALYTIC ACTIVITY] 2 acetyl-CoA = CoA + acetoacetyl-CoA. [SIMILARITY] BELONGS TO THE THIOLASE FAMILY.
A number of eukaryotic and prokaryotic proteins involved in ATP-dependent, nucleic-acid unwinding have been characterized on the basis of their structural similarity. All these proteins share a number of conserved sequence motifs. Some of them are specific to this family while others are shared by other ATP-binding proteins or by proteins belonging to the helicases 'superfamily' .Proteins containing this domain include the DEAD and DEAH box helicases. The DExH/D-box proteins are a large family of ATPases that have been proposed to mediate RNA structural rearrangements in a variety of cellular processes, including nuclear pre-mRNA splicing, ribosome assembly, protein synthesis, nuclear transport, and RNA degradation.
Putative ATP-dependent serine protease (Lon), similar to At5g26860-68299.m02737 F2P16.23 Lon protease homolog 2 precursor almost identical to Lon protease homolog 2 mitochondrial precursor SP:P93655, GI:1848290 from [Arabidopsis thaliana] (model%: 99, hit%: 75, score: 1854, %id: 52) [Arabidopsis thaliana]; EST support
Clearly most similar to arabidopsis homologues, evidence for the presence of a chlorophytic gene in Thaps
supported by cDNAs; putative protein with distant similarity to unknown proteins
similar to AMP-dependent synthetases and ligases; hypothetical protein
conserved hyptothetical protein with similarity to peptidase
lcohol dehydrogenase (ADH) catalyzes the reversible oxidation of ethanol to acetaldehyde with the concomitant reduction of NAD: Ethanol + NAD = Acetaldehyde + NADH Currently three structurally and catalytically different types of alcohol dehydrogenases are known: 1.Zinc-containing 'long-chain' alcohol dehydrogenases. 2.Insect-type, or 'short-chain' alcohol dehydrogenases. 3.Iron-containing alcohol dehydrogenases. Zinc-containing ADH's are dimeric or tetrameric enzymes that bind two atoms of zinc per subunit. One of the zinc atom is essential for catalytic activity while the other is not. Both zinc atoms are coordinated by either cysteine or histidine residues; the catalytic zinc is coordinated by two cysteines and one histidine. Zinc-containing ADH's are found in bacteria, mammals, plants, and in fungi. In most species there are more than one isozyme (for example, human have at least six isozymes, yeast have three, etc.). A number of other zinc-dependent dehydrogenases are closely related to zinc ADH and are included in this family. In addition, this family includes NADP-dependent quinone oxidoreductase, an enzyme found in bacteria (gene qor), in yeast and in mammals where, in some species such as rodents, it has been recruited as an eye lens protein and is known as zeta-crystallin. The sequence of quinone oxidoreductase is distantly related to that other zinc-containing alcohol dehydrogenases and it lacks the zinc-ligand residues. The torpedo fish and mammalian synaptic vesicle membrane protein vat-1 is related to qor.
Protein contains chitin binding peritrophin-A domains (IPR002557) and some similarity to Pfam model for Chitin binding Peritrophin-A domain (PF01607).; putative protein with chitin binding peritrophin-a domains
putative RNA helicase, involved in RNA processing
involved in heat shock response, molecular chaperone function, protein transport. Most similar to oomycete homologues therefore likely a gene originating from the diatom host cell nucleus, one of up to 13 copies
Heat shock protein 90 family member. Based on blast hits, looks like it may be from an Oomycete ancestor.; HSP82, HSP81-2
hypothetical protein with low similarity to cdv-1r
Good hits to hsp90 proteins from other organisms. The best hit is to HSP90 from Achlya ambisexualis with an e value of 2.9e-39. It contains InterPro domain #IPR001404, which is a domain found in proteins that belong to the heat shock hsp90 proteins family. It also has good homology to Pfam model #PF00183, which is characteristic of HSP90 protein family members.
Nucleoside diphosphate kinase (NDK) (NDPK) (NDP kinase), similar to gi|127980|sp|P08879|NDKA_DROME Nucleoside diphosphate kinase (NDK) (NDP kinase) (Abnormal wing discs protein) (Killer-of-prune protein) (model%: 100, hit%: 92, score: 535, %id: 70) [Drosophila melanogaster]
dolichyl-phosphate-mannose-glycolipid alpha-mannosyltransferase
possibly involved in N-glycan biosynthesis or GPI-anchor biosynthesis
good sequence similarity to other cdc21-like proteins. Contains MCM domain. EST support.; DNA replication licensing factor, MCM4
based on sequence similarity and presence of Pyridoxal-5'-phosphate-dependent enzymes, beta family domain.
Putative protein of unknown function containing a metalloprotease domain (metallopeptidase), with some similarities to dme:CG3953 metalloendopeptidase custom_KEGG (model%: 89, hit%: 51, score: 151, %id: 22) [Drosophila melanogaster]; EST support; putative protein of unknown function containing a metalloprotease domain
contains conserved protein phosphatase 2C domain (IPR001932); serine/threonine specific protein phosphatases; Its exact physiological role is still unclear; may be serine threonine specific; putative protein phosphatase type 2C (PP2C)
phenylalanine tRNA synthtetase-like protein
probable acyl-coa dehydrogenase, short/branched chain specific
Partial Phaeodactylum cDNA support, good similarity to known sequences.
supported by a Thaps EST; putative protein of unknown function containing similarity to nuclear import proteins and unknown peptides
Possible amino acid/polyamine transporter family II.
partially supported by a Thalassiosira EST
supported by cDNAs; protein of unknown function with no known similarity
HSF5, Contains heat shock transcription factor DNA-binding domain, DNA binding, transcription factor; HSF5, contains heat shock transcription factor DNA-binding domain, DNA binding, transcription factor
supported by cDNAs; hypothetical protein with clear similarity to proteins of unknown function
HSF4, Contains heat shock transcription factor DNA-binding domain, DNA binding, transcription factor; HSF4, contains heat shock transcription factor DNA-binding domain, DNA binding, transcription factor
desaturates fatty acids at the delta-6 position, similar to other front end desaturases, contains a cytochrome b5 N-termal fusion and histidine-box catalytic sites.
presence of leucine-rich repeats, including those of the ribonuclease inhibitor type; putative protein containing leucine-rich repeats of ribonuclease inhibitor type
gi|21397987|ref|NP_653972.1| (NC_003995) Putative protein similar to cytidine deaminases, e.g. dCMP_cyt_deam, Cytidine and deoxycytidylate deaminase zinc-binding region [Bacillus anthracis A2012] [Bacillus anthracis str. A2012] (model%: 92, hit%: 89, score: 305, %id: 46) [Bacillus anthracis str. A2012]; putative protein similar to cytidine deaminases
with sequence similarity to yeast pre-mRNA splicing factor Prp1/Zer1 and Prp6
Dna repair, Base excision repair, Uracil glycosylase
Adenylylsulfate kinase 1 (APS kinase) (Adenosine-5'phosphosulfate kinase) (ATP adenosine-5'-phosphosulfate 3'-phosphotransferase), similar to spo:SPAC1782.11 adenylylsulfate kinase custom_KEGG (model%: 95, hit%: 95, score: 583, %id: 57) [Schizosaccharomyces pombe], and gi|7387811|sp|Q43295|KAP1_ARATH Adenylylsulfate kinase 1, chloroplast precursor(model%: 100, hit%: 72, score: 550, %id: 52) [Arabidopsis thaliana]
RL23a, ribosomal protein 23a 60S large ribosomal subunit
RL23a, ribosomal protein 23a, 60S large ribosomal subunit, nuclear, translation, protein biosynthesis
putative protein based on sequence similarity to hypothetical protein from mouse and human; putative protein
sodium/hydrogen exchanger, Na+/H+ exchanger, antiporter
Na+/H+ exchange proteins eject protons from cells
[CATALYTIC ACTIVITY] ACYL-COA + ACETYL-COA = COA + 3-OXOACYL-COA. [PATHWAY] ONE OF THE ENZYMES OF THE FATTY ACID BETA-OXIDATION CYCLE IN THE MITOCHONDRIA. [SUBCELLULAR LOCATION] MITOCHONDRIAL. [SIMILARITY] BELONGS TO THE THIOLASE FAMILY.
thiaminephosphate pyrophosphorylase thiamine phosphate synthase
involved in thiamine synthesis (vitamin B1); B1 biosynthesis protein
possible phosphomethylpyrimidine kinase, biotin synthesis
67% similar to hypothetical protein from Chlroroflexus, also 50% similar to chlN from the Cyanidium caldarium plastome, involved in chlorophyll synthesis, EST-SUpport; putative protein
no known homologies, but EST support from T.pseudonana maintained in exponential growth; putative protein of unknown function
An enzyme of the methionine metabolism pathway. Identification supported by moderate to good sequence similarity with known genes.
based on sequence similarity to conserved hypothetical protein from Arabidopsis and bacteria; putative protein of unknown function that displays homology to conserved hypotheticalals
based on sequence homology and defining domains
Putative protein of unknwon function containing a metalloprotease domain (metallopeptidase); similarities to dme:CG3953 metalloendopeptidase custom_KEGG (model%: 100, hit%: 38, score: 200, %id: 31) [Drosophila melanogaster]; putative protein of unknwon function containing a metalloprotease domain
Retinal 3',5'-cGMP phosphodiesterase (PDE) is located in photoreceptor outer segments: it is light activated, playing a pivotal role in signal transduction. In rod cells, PDE is oligomeric, comprising an alpha-, a beta- and 2 gamma-subunits, while in cones, PDE is a homodimer of alpha chains, which are associated with several smaller subunits. Both rod and cone PDEs catalyse the hydrolysis of cAMP or cGMP to the corresponding nucleoside 5' monophosphates, both enzymes also binding cGMP with high affinity. The cGMP-binding sites are located in the N-terminal half of the protein sequence, while the catalytic core resides in the C-terminal portion. This gene appears to encode a cAMP-specific phosphodiesterase.
based on sequence similarity and presence of HIo933 domain found in other hypothetical proteins, may act as an oxidoreductase; putative protein of unknown function with sequence similarity to hypothetical protein from cyanobacteria
Some similarity to various helicases.; hypothetical gene
Strong hits in other genomes and pfam and tigr hmms.EST in phaeodactylum.
Small subunit of NAD(P)H-dependent GOGAT, catalyzes the formation of two molecules glutamate from one glutamine and one oxoglutarate in the presence of NAD(P)H. Note: this subunit is not present in ferredoxin-dependent GOGAT. It is a single gene in Thalassiosira whereas it is fused to the large subunit in green plants, animals and fungi. K Valentins original descrption; gltD
Putative protein of unknown function containing a rhodanese domain; similar to At1g09280-68300.m00888 T12M4.1 unknown protein; supported by cDNA: gi_15081790_gb_AY048288.1_ (model%: 57, hit%: 47, score: 347, %id: 32) [Arabidopsis thaliana]; EST support; putative protein of unknown function containing a rhodanese domain
Putative protein of unknown function containing a peptidase/esterase/lipase domain; some similarities to gi|19774422|gb|AAL99100.1| (AC116425) hypothetical protein [Dictyostelium discoideum] (model%: 64, hit%: 54, score: 696, %id: 40) [Dictyostelium discoideum]; EST support; putative protein of unknown function containing a peptidase/esterase/lipase domain
probable mitochondrial processing peptidase
Probable mitochondrial processing peptidase, e.g. gi|12802327|gb|AAK07827.1|AF297643_1 mitochondrial processing peptidase beta subunit [Cucumis melo] (model%: 100, hit%: 81, score: 1125, %id: 52) [Cucumis melo]; EST support
Contains conserved Cdc37 domain (IPR004918). In the budding yeast Saccharomyces cerevisiae, cell division control protein Cdc37 is required for the productive formation of Cdc28-cyclin complexes. Cdc37 may be a kinase targeting subunit of Hsp90; Weak alignment with other cdc37 (36% amino acid identity)
Membrane component of the ER import system. Other proteins involved: sec62, sec63. Similar to secY which is involved in thylakoid protein import.
Belongs to a class of transferases transferring phosphorus-containing groups.Generally, phosphotransferases with an alcohol group as acceptor.Catalyzes: ATP + NAD = ADP + NADPAlso, related to UTR1 and associated with ferric reductase activity in Neurospora crassa and Saccharomyces cerevisiae.
putatative haloacid dehalogenase/epoxide hydrolase
puative ATP phosphoribosyltransferase which catalyzes the first step in histidine biosynthesis. Based on sequence similarity to fungal proteins, presence of defining domains, and EST support
The 'beige' mouse is established as an animal model of Chediak-Higashi Syndrome (CHS). The BEACH domain was described in the BEIGE protein (D1035670) and in the highly homologous CHS protein Q99698. It is also found in distantly related proteins like, for example, O35242 and Q92636 which are factor associated with neutral sphingomyelinase activation. The BEACH domain is usually followed by a series of WD repeats (PDOC00574). The function of the BEACH domain is unknown.
U2 snRNP auxillary splicing factor, U2AF subunit
HSF23, Contains heat shock transcription factor DNA-binding domain, DNA binding, transcription factor; HSF23, contains heat shock transcription factor DNA-binding domain, DNA binding, transcription factor
based on sequence homology and Phaeodactylum EST support
high similarity to Arabidopsis diacylglycerol kinase
Proline biosynthesis. BELONGS TO THE PYRROLINE-5-CARBOXYLATE REDUCTASE FAMILY.
when extended at the N-terminus it contains (251 aa upstream) it contains putative ER signal peptide predicted by SignalP (probability 0.988; possible cleavage site between pos. 19 and 20: VTT-TY). Putatively ER targeted. The N-terminal extension probably contains introns.
The Ras branch of the Ras superfamily consists of small GTPases most closely related to Ras and include the R-Ras, Rap, Ral, Rheb, Rin and Rit proteins. Although our understanding of Ras signaling and biology is now considerable, recent observations suggest that Ras function is more complex than previously believed. This family is similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades. This protein also contains two putative calcium-binding EF-hands.
oxygen-evolving enhancer protein 1 precursor
oxygen-evolving enhancer protein 1 precursor (PsbO) gene, contains bipartite plastid targeting presequence, signal- and transit-peptides predicted at N-terminus with conserved motif at signal peptide cleavage site, additional thylakoidal signal peptide present
Putative tocopherol cyclase; involved in tocopherol synthesis; similar to gi|24212569|sp|Q94FY7|TOCC_ARATH Tocopherol cyclase, chloroplast precursor (Vitamin E deficient 1) (Sucrose export defective 1) (model%: 99, hit%: 82, score: 704, %id: 38) [Arabidopsis thaliana]
TPS_105944 is homologous to protein kinases in vasular plants, many of which have been linked todisease resistance. The model contains leucine rich repeat regions. Leucine-rich repeats (LRRs) are 20-29-residue sequence motifs present in tandem arrays anumber of proteins with diverse functions, such as hormone receptor interactions, enzymeinhibition, cell adhesion and cellular trafficking. Many of the database homologs are transmembrane proteins,; hypothetical protein similar to vascular plant receptor like protein kinases
60% similar to a hypothetical conserved protein from humans, less similar proteins from Arabidopsis and G. theta. No EST support.; protein
DNA directed RNA polymerase III, largest subunit
SIT3, silicic acid transporter-like protein
SIT3, silicic acid transporter homolog, similar to C. fusiformis SITs, intron in a different location than the other two SIT copies in T. pseudonana
outer dynein arm intermediate chain subunit-like protein
Microtubule based molecular motor involved in force generation for ciliary motility. Multisubunit enzyme consisting of heavy,intermediate,light-intermediate,and light chains.
DNA repair, Nucleotide and base excision repair
cytoplasmic dynein intermediate chain-like protein
Microtubule based molecular motor involved in movement of organelles,vesicles,etc. along microtubules. Multisubunit enzyme consisting of heavy,intermediate,light-intermediate,and light chains.
putative DNA polymerase I (POL1) replicative
putative protein with similarity to phosphoglycerate mutase
based on sequence similarity to metazoan proteins, EST support and presence of phosphoglycerate mutase domain; putative protein with phosphoglycerate mutase domain
contains domain found in other proteins of unknown function. Phaeodactylum EST; putative protein of unknown function
Probable homogentisate 1,2-dioxygenase, involved in styrene degradation pathway; similar to At5g54080-68299.m05273 MJP23.6 homogentisate 1,2-dioxygenase (model%: 97, hit%: 93, score: 994, %id: 46) [Arabidopsis thaliana]; EST support