Thalassiosira pseudonana CCMP1335 chromosome 7, complete 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 CP001160.\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.\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)\nLinear chromosome missing portions of the telomeres.\nThe remaining chromosomes for this strain have been deposited under\nthe Whole Genome Shotgun project accession AAFD00000000.\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.
Bears distant similarity to unknown proline-rich and wd-repeat proteins.
Involved in peroxide detoxification. Contains InterPro domain #IPR000889 for glutathione peroxidases. Also has good similarity to Pfam model #PF00255 for glutatione peroxidases.
Copper transporting ATPase. Strong hits and interpro domains. Location unclear.
contains a CRALBP/TRIO domain, present in several lipid-transfer proteins and proteins with diverse functions; phosphatidylinositol/phosphatidylcholine transfer protein; PI transfer protein; PITP; PI/PC TP
ABC transporter, ATP binding protein. Location unknown.
probable member of 'Glycosyltransferase 10' family;This family of Fucosyltransferases are the enzymes transferring fucose from GDP-Fucose to GlcNAc in an alpha1,3 linkage
based on sequence similarity to hypothetical proteins from bacteria
Contains InterPro domain #IPR001189 for manganese and iron superoxide dismutase family members. Also contains similarity to Pfam model #PF00081 for sodfe Iron/manganese superoxide dismutases, alpha-hairpin domain. Good hits to iron SOD's in a variety of prokaryotes.; SODF
Superoxide dismutase that belongs to the Mn/Fe binding superoxide dismutase family. Superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen.; SODF
based on sequence similarity, EST support from Phaeodactylum and presence of ABC1 and kinase domains; putative protein of unknownn function that displays similarity to conserved hypotheticals
Has greatest similarity to enoyl-CoA hydratase, but gene structure does not match known enoyl-CoA hydratases very well. Complete cDNA support.; Unknown protein
protein kinase MAPKKKK, MAP4K-like protein
Contains conserved signature sequence of MAPKKKK, TFVGTPCWMAPEV, with the exception of an inserted C. May be involved in oxidative stress response. Supporting P. tricornutum EST support
good EST support and sequence similarity
Phaeodactylum EST support and sequence similarity
RNA-binding protein of the pumilio family
presence of pumilio domains and EST support the putative role of this protein binding RNA for translational repression; puf, pum-hd
Some similarity to various tRNA transferase sequences
dehydroascorbate reductase and valine--tRNA ligase-like protein-like protein
supported by sequence simiarity and EST data
VAMP, membrane-associated vesicle protein
possibly a phosphatase from the CbbY protein family
No EST evidence and best hits are to unknown expressed proteins. Weak evidence for a CbbY protein, but also some evidence suggesting this is a member of the haloacid dehalogenase/epoxide hydrolase family.
This enzyme belongs to the peroxidase family and the cytochrome C peroxidase subfamily. It destroys radicals which are normally produced within the cells and which are toxic to biological systems. CCP is located in the mitochondrial matrix. This protein does have a mitochondrial target sequence (first 19 amino acids). It contains InterPro domain #IPR002016 for haem peroxidases and strong similarity to Pfam model #PF00141 for peroxidases. This gene has EST support from Phaeodactylum, but not T. pseudonana. The best hit was to Cytochrome C Peroxidase (score of 499) from Saccharomyces Cerevisiae.; CCP), mitochondrial
based on sequence similarity to conserved hypotheticals from Arabidopsis and cyanobacteria and presence of kinase and ABC1 domain
Putative protein of unknown function, with similarities to pseudouridylate synthase (pseudouridine synthase) (uracil hydrolase); EST support; pseudouridine synthase; uracil hydrolase; Putative protein of unknownn function, with similarity to pseudouridylate synthase
Putative protein of unknown function containing leucine-rich repeats; similar to At4g20140-68296.m02098 F1C12.60 leucine rich repeat-like protein Cf-2.2, Lycopersicon pimpinellifolium, PIR:T10515 (model%: 66, hit%: 37, score: 493, %id: 24) [Arabidopsis thaliana]; Putative protein of unknownn function containing leucine-rich repeats
Co-localizes with Braca1 in subnuclear foci
HSF33, heat shock transcription factor DNA-binding domain-containing protein, DNA binding, transcription factor
HSF33, Contains heat shock transcription factor DNA-binding domain, DNA binding, transcription factor
Putative subtilisin-like serine protease, similar to At5g58820-68299.m05820 K19M22.2 MZN1.31 subtilisin-like serine protease contains similarity to prepro-cucumisin GI:807698 from [Cucumis melo] (model%: 34, hit%: 49, score: 147, %id: 18) [Arabidopsis thaliana]
coantians glycoside hydrolase, family 19 domain
conatins glycoside hydrolase, family 18 domain; hypothetical protein, unknownn function
possible plastid precursor FOR ACCase; Biotin Carboxylase
Contains conserved ser/thr protein kinase domain (IPR002290) and tyr kinase domain (IPR001245). Aligns with renal tumor antigen in H. sapiens (49% identity over 290 amino acids), a novel member of the MAP kinase family.
Hits to ESTs from diatom, chlorophyta, and phaeodactylum libraries. Excellent matches to isocitrate lyases from bacteria and yeasts as well as good matches to hsp groupings.
desaturates fatty acids at the delta-5 position,similar to other front end desaturases,contains a cytochrome b5 N-termal fusion and histidine-box catalytic sites.
probable long-chain-fatty-acid--CoA ligase
Function esterification, concomitant with transport, of exogenous long-chain fatty acids into metabolically active CoA thioesters for subsequent degredation or incorporation into phospholipids (by similarity); catalytic activty: ATP + a long-chain carboxylic acid + CoA = AMP + disphosphate + an acyl-CoA; cofactor: magnesium (by similarity). subunit homodimer (probable). subcellular location partially membrane-associated (potential); similarity: belongs to the ATP-dependent AMP-binding enzyme familty
based on sequence similarity to bacterial proteins and EST support
ribulose-phosphate 3-epimerase, phosphoribulose epimerase, erythrose-4-phosphate isomerase, phosphoketopentose 3-epimerase, xylulose phosphate 3-epimerase, phosphoketopentose epimerase, ribulose 5-phosphate 3-epimerase, D-ribulose phosphate-3-epimerase, D-ribulose 5-phosphate epimerase, D-ribulose-5-P 3-epimerase, D-xylulose-5-phosphate 3-epimerase, pentose-5-phosphate 3-epimerase
D-ribulose-5-phosphate 3-epimerase, cytosolic pentose phosphate pathway, similar to gi|16120498|ref|NP_403811.1| (NC_003143) ribulose-phosphate 3-epimerase [Yersinia pestis] (model%: 95, hit%: 97, score: 851, %id: 71)
No reasonable similarity to any known sequences.
Many calcium-binding proteins belong to the same evolutionary family and share a type of calcium-binding domain known as the EF-hand. This type of domain consists of a twelve residue loop flanked on both side by a twelve residue alpha-helical domain. In an EF-hand loop the calcium ion is coordinated in a pentagonal bipyramidal configuration. The six residues involved in the binding are in positions 1, 3, 5, 7, 9 and 12; these residues are denoted by X, Y, Z, -Y, -X and -Z. The invariant Glu or Asp at position 12 provides two oxygens for liganding Ca (bidentate ligand).; CaM), calcium-binding protein with EF hands
Function unknown. Possible reaction catalyzed:D-mannose 1-phosphate = D-mannose 6-phosphate.; mannose phosphomutase
Putative protein of unknown function containing a glutaredoxin (arenate reductase) domain, similar to putative protein contains similarity to glutathione-S-transferase/glutaredoxin;(model%: 78, hit%: 75, score: 336, %id: 35) [Arabidopsis thaliana]; arsenate reductase; Putative protein of unknownn function containing a glutaredoxin domain
Hydrolyzes terminal 1,3-alpha-D-glucopyranosyl residues from nascent glycoproteins.; putative; exo-1,3-alpha-glucosidase
Putative protein of unknown function having similarities to plant disease resistance proteins; e.g ath:At5g27060 F15P11.4; resistance protein - like (model%: 100, hit%: NO HIT LENGTH, score: 133, %id: 45) [Arabidopsis thaliana]; Putative protein of unknownn function having similarity to plant disease resistance proteins
Catalyzes the conversion of arginine to ornithine.Metabolism; Amino Acid Metabolism; Urea cycle and metabolism of amino group Metabolism; Amino Acid Metabolism; Arginine and proline metabolism
Putative protein of unknown function containing a metalloprotease domain (metallopeptidase), with some similarities to cel:Y43F4A.1 zinc metallopeptidase (M8 family) (CE16622) custom_KEGG (model%: 84, hit%: 44, score: 296, %id: 32) [Caenorhabditis elegans]; Putative protein of unknownn function containing a metalloprotease domain
based on sequence similarity to conserved hypotheticals from Arabidopsis and cyanobacteria and presence of ABC1 domain; putative protein of unknown function with similarity to conserved hypotheticals
a regulator of G-protein signaling domain-containing protein
Regulator of G Protein Signaling (RGS) proteins function as GTPase-activating proteins (GAPs) that stimulate the inactivation of heterotrimeric G proteins and are responsible for the rapid turnoff of G protein-coupled receptor signaling pathways.
U1 small nuclear ribonucleoprotein, U1sRNP protein
function of protein is unknown but contains the SCP/Tpx-1/Ag5/PR-1/Sc7 domain which is found in a family of eukaryotic proteins involved in such things as sperm maturation in rodents, pathogenesis-related proteins, venom allergens. Common feature of these proteins is extracellular localization. The diatom protein appears to be a member of a protein family.; putative protein of unknownn function that contains a SCP/Tpx-1/Ag5/PR-1/Sc7 domain
based on sequence similarity to urea transporters from metazoans and presence of urea transporter 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. Contains a putative GAF domain.; with some similarity to cyclic nucleotide phosphodiesterases
similar to phytochelatin synthase in Nostoc PCC7120, important for metal (Cd, Cu) toxicity. Blast hit is half size of Nostoc phytochelatin synthase.
transporter belonging to the MFS superfamily
Good hits to other transporters belonging to the MSF superfamily and pfam model. Also contains InterPro domain #003662, which is a domain characteristic of general substrate transporters.
putative V-type H-ATPase based on sequence similiarity
HSF36, heat shock transcription factor DNA-binding domain-containing protein, DNA binding, transcription factor
HSF36, Contains heat shock transcription factor DNA-binding domain, DNA binding, transcription factor
Very poor alignment; hypothetical protein
RL3, ribosomal protein 3, 60S large ribosomal subunit
RL3, ribosomal protein 3, 60S large ribosomal subunit, nuclear, translation, protein biosynthesis
putative RNA methyltransferase, also similar to cell division protein ftsJ
based on sequence similarity, defining domains, and EST support from exponentially growing T. pseudonana culture; structural maintenance of chromosomes
Synonym(s): Suvar3-9,Enhancer-of-zeste,Trithorax Several 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.
cell division control protein, cdc2, cyclin-dependent kinase, cdk1, p34
Contains conserved protein kinase, tyrosine kinase, and serine/threonine kinase domains (IPR000719, IPR001245, and IPR002290). High similarity to other cdc2 kinases (61% amino acid identity). Strong Phaeodactylum tricornutum EST supporting data.
Involved in amino acid metabolism, i.e. lysine degradation, folate biosynthesis, metabolism of cofactors and vitamins. Was detected by blasting with a red algal plastig gene copy. Is much more similar to the homologues from Arabidopsis and cyanobacteria, therefore indicating an green ancestry of the diatom host cell.
RL18, ribosomal protein 18, 60S large ribosomal subunit
RL18, ribosomal protein 18, 60S large ribosomal subunit, nuclear, translation, protein biosynthesis
HSF35, heat shock transcription factor DNA-binding domain-containing protein, DNA binding, transcription factor
HSF35, Contains heat shock transcription factor DNA-binding domain, DNA binding, transcription factor
Good similarity to known sequences.; dTMP synthase, thymidylate synthetase, methylenetetrahydrofolate:dUMP C-methyltransferase, TMP synthetase
in addition to previous annotation: Putatively targeted to mitochondrion, putative mitochondrial leader sequence predicted by TargetP (probability 0.945; length 34 aa). The N-terminus may also contain weakly supported ER signal peptide (SignalP probablity 0.620; possible cleavage site between pos. 27-27 LLS-AS).
HSF34, heat shock transcription factor DNA-binding domain-containing protein, DNA binding, transcription factor
HSF34, Contains heat shock transcription factor DNA-binding domain, DNA binding, transcription factor
HSF32, heat shock transcription factor DNA-binding domain-containing protein, DNA binding, transcription factor
HSF32, Contains heat shock transcription factor DNA-binding domain, DNA binding, transcription factor
Histone H2B is one of the four histones, along with H2A, H3 and H4, which forms the eukaryotic nucleosome core. Histone H2B is a small, highly conserved nuclear protein that, together with 2 molecules each of histones H2A, H3 and H4, forms the eukaryotic nucleosome core; the nucleosome octamer winds 146 DNA base-pairs.
Histone H2A is a small, highly conserved nuclear protein that, together with 2 molecules each of histones H2B, H3 and H4, forms the eukaryotic nucleosome core; the nucleosome octamer winds 146 DNA base-pairs.
[catalytic activty] L-3-hydroxyacyl-CoA + NAD(+) = 3-oxoacyl-CoA + NADH.. [similarity] belongs to the short-chain dehydrogenases/reductases (SDR) family
probable aminotransferase in nostoc sp-like protein
chloroplast protein Cpn21 in A-like protein
Contains homology to hypothetical proteins from a variey of organisms
hypothetical 3',5'-cyclic AMP phosphodiesterase
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 is likely to encode a cAMP-specific phosphodiesterase.; cAMP-PDE
protein glycoside hydrolase, family 19 domain-containing protein
Contains glycoside hydrolase, family 19 domain (IPR000726). Contains similarity to Pfam models PF000182 (glycoside hydrolase, family 19) and PF01023 (Ca binding domain).
based on sequence similarity to hypothetical bacterial proteins. Presence of domain ThiJ/Pfp1 found in other hypothetical proteins; putative protein of unknownn function
alanine aminotransferase, aminotransferase class I
aspartate-tRNA ligase or aspartyl tRNA synthetase
I got to this gene by going down the list of genes involved in alanine and aspartate metabolism under KEGG.
CTP synthase (UTP--ammonia ligase) (CTP synthetase); similar to At3g12670-68298.m01352 T2E22.2 MBK21.10 CTP-synthetase (model%: 99, hit%: 94, score: 1664, %id: 56) [Arabidopsis thaliana]; very strong EST support; UTP--ammonia ligase; CTP synthetase
contains SEC7 domain (Arf-specific GEFs); ADP ribosylation factor guanyl nucleotide exchanche factor, ArfGEP, Arf GDP/GTP exchange protein
I got to this annotation as one of seven of the aspartate aminotransferases called by grail/genewise. Aminotransferases class-I; transaminase
calcium binding protein, component of the centrosome, can also be found as a subunit of flagellar dynein
based on sequence similarity to hypothetical proteins from metazoans, EST support, and presence of domain found in other hypothetical proteins; hypothetical protein of unknownn function
This protein contains the aldo/keto reductase family motif and the Myb DNA binding domain. It is similar to many other hypothetical proteins. There is partial EST support for this gene.
monogalactosyldiacylglycerol synthase-like protein
hypothetical glutamyl-tRNA amidotransferase
This gene may be involved in alanine and aspartate metabolism.; Gln
This gene contains the motif for Band 7 proteins. It appears to be a hypothetical conserved protein. There is no EST support yet for this gene.
NAD+ synthase catalyzes the last step in the biosynthesis of nicotinamide adeninedinucleotide and is induced by stress factors such as heat shock and glucose limitation. Thethree-dimensional structure of NH3-dependent NAD+ synthetase from Bacillus subtilis, in its freeform and in complex with ATP shows that the enzyme consists of a tight homodimer withalpha/beta subunit topology.
gi|19570340|dbj|BAB86297.1| (AB071535) alkaline serine protease IV [Alteromonas sp. O-7] (model%: 68, hit%: 55, score: 676, %id: 48) [Alteromonas sp. O-7]; EST support
Putative protein of unknown function containing an aspartic protease domain; strong EST support; Putative protein of unknownn function containing an aspartic protease domain
potential function of protein is unknown but contains the SCP/Tpx-1/Ag5/PR-1/Sc7 domain which is found in a family of eukaryotic proteins involved in such things as sperm maturation in rodents, pathogenesis-related proteins, venom allergens. Common feature of these proteins is extracellular localization. The diatom protein appears to be a member of a protein family.; putative protein of unknownn function that contains a SCP/Tpx-1/Ag5/PR-1/Sc7 domain
protein scp/tpx-1/ag5/pr-1/sc7 domain-containing protein
based on limited similarity to other PR-1 like proteins. Contains the defining domain; extracellular PR-1-like, pathogen related
phytoene dehydrogenase, phytoene desaturase and carotenoid isomerase-like protein
Phytoene dehydrogenase (phytoene desaturase) is an enzyme of carotenoid biosynthesis that converts phytoene into zeta-carotene via the symmetrical introduction of two double bonds at the C-11 and C-11' positions of phytoene. The sequence of phytoene dehydrogenase from bacteria (gene crtI or carC) and fungi (gene AL-1) are not related to that from cyanobacteria and plants but is evolutionary related to other enzymes of carotenoid biosynthesis, methoxyneurosporene dehydrogenase (gene crtD) and carotenoid isomerase. There are two glycine-rich conserved regions, both of which probably play a role in the binding of either FAD or NAD. The first conserved region is in the N-terminal section while the second one is in the C-terminal section.
possible transporter based on interpro hits but not in Saier database.
cytoplasmic dynein heavy 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.
MYB DNA binding protein/ transcription factor-like protein
Member of MYB DNA binding protein/ transcription factor family.
putative protein of unknown function based on sequence similarity to other hypothetical proteins from metazoans. Contains ATP/GTP binding site motif A; putative protein of unknownn function
based on sequence similarity and presence of L-asparginase domain. Involved in amino acid metabolism; asparigine cleaved to aspartic acid and ammonium ion
based on sequence similarity; sexually induced protein from T
sigma subunit of clathrin adaptor protein AP3
extensive cDNA support; protein of unknownn function
glycerokinase, ATP:glycerol 3-phosphotransferase
Greatest sequence similarity to U5 small nuclear ribonucleoprotein 200 kDa helicase; also highly similar to ATP-dependent RNA helicase and pre-mRNA splicing helicase. Partial cDNA support.
putative ATP-dependent helicase, DNA binding and repair protein
SIR2-like transcriptional regulatory protein
Silent Information Regulator Sir2 protein is one of several factors critical for silencing at least three loci in yeast. Among them, it is unique because it silences the rDNA as well as the mating type loci and telomeres. Sir2p interacts in a complex with itself and with Sir3 and Sir4, two proteins that are able to interact with nucleosomes. In addition Sir2 also interacts with ubiquitination factors and/or complexes. Unlike Sir3p and Sir4p, for which no homologues are known, Sir2p is part of a multigene family in yeast (Homologues of Sir Two (HST) that has highly conserved structural homologues in organisms ranging from bacteria to man. Proteins of this family have been proposed to play a role in silencing, chromosome stability and recombination. In addition, an in vitro ADP ribosyltransferase activity has been associated with E. coli and human members of this family. Homologues of Sir2 share a core domain including the GAG and NID motifs and a putative C4 Zinc finger. The regions containing these three conserved motifs are individually essential for Sir2 silencing function, as are the four cysteins. In addition, the conserved residues HG next to the putative Zn finger have been shown to be essential for the ADP ribosyltransferase activity.
silicic acid transporter, silicon transport
Silicic acid transporter (SIT), similar to SITs in the diatom Cylindrotheca fusiformis. One of three copies in T. pseudonana
Sir2- type regulatory transcription factor silent information regulator protein
Silent Information Regulator Sir2 protein is one of several factors critical for silencing at least three loci in yeast. Among them, it is unique because it silences the rDNA as well as the mating type loci and telomeres. Sir2p interacts in a complex with itself and with Sir3 and Sir4, two proteins that are able to interact with nucleosomes. In addition Sir2 also interacts with ubiquitination factors and/or complexes. Unlike Sir3p and Sir4p, for which no homologues are known, Sir2p is part of a multigene family in yeast (Homologues of Sir Two (HST) 1,2,3,4) that has highly conserved structural homologues in organisms ranging from bacteria to man. Proteins of this family have been proposed to play a role in silencing, chromosome stability and recombination. In addition, an in vitro ADP ribosyltransferase activity has been associated with E. coli and human members of this family. Homologues of Sir2 share a core domain including the GAG and NID motifs and a putative C4 Zinc finger. The regions containing these three conserved motifs are individually essential for Sir2 silencing function, as are the four cysteins. In addition, the conserved residues HG next to the putative Zn finger have been shown to be essential for the ADP ribosyltransferase activity; Sirtuin
PLC hydrolyses phosphatidylinositol 4,5-bisphosphate (PIP2), yielding soluble inositol 1,4,5-trisphosphate (IP3) and membrane-bound diacylglycerol (DAG). IP3 binds specific intracellular receptors to trigger Ca2+ mobilisation, while DAG mediates activation of a family of protein kinase C isozymes.; PLC; phosphatidyl-inositol 4,5-diphosphate phosphodiesterase; PtdInsP2 phosphodiesterase; PIP2 phosphodiesterase
RK28, ribosomal protein 28, 50S large ribosomal subunit, chloroplast
RK28, ribosomal protein 28, 50S large ribosomal subunit, chloroplast, nuclear encoded, translation, protein biosynthesis
Function unknown.; weak similarity to oxidoreductase
The aldo-keto reductase family includes a number of related monomeric NADPH-dependent oxidoreductases, such as aldehyde reductase, aldose reductase, prostaglandin F synthase, xylose reductase, rho crystallin, and many others. All possess a similar structure, with a beta-alpha-beta fold characteristic of nucleotide binding proteins. The fold comprises a parallel beta-8/alpha-8-barrel, which contains a novel NADP-binding motif. The binding site is located in a large, deep, elliptical pocket in the C-terminal end of the beta sheet, the substrate being bound in an extended conformation. The hydrophobic nature of the pocket favours aromatic and apolar substrates over highly polar ones.
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
No similarity to known sequences. Nearly complete cDNA support.; Unknown protein
On the basis of sequence similarities a family of related ATP-binding proteins has been characterized. ABC transporters are transport systems which consist of three different proteins which function together to import metabolites into the cell. ABC stands for ATP-binding cassette. The three components are: 1) ATP-binding protein - resides in the cytoplasm, associated with the inner membrane, provides the energy for transport through hydrolysis of ATP. 2) permease - spans the inner membrane, makes the channel for the metabolite to pass through. 3) periplasmic substrate-binding protein - resides in the periplasm in gram negative organisms and is attached to the cytoplasmic membrane in gram positive organisms (and is therefore not called periplasmic), this protein binds the substrate with high affinity and initiates transport through the permease. The likely stoichiometry of these proteins in the cell is two permeases, two ATP-binding proteins and great excess of substrate binding protein per transport structure. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence or the 'P-loop' (see IPR001687).
RL21, ribosomal protein 21, 60S large ribosomal subunit
RL21, ribosomal protein 21, 60S large ribosomal subunit, nuclear, translation, protein biosynthesis
bifunctional aspartokinase/homoserine dehydrogenase
Matches to ESTs from other diatoms. Strongest alignments are to chloroplast precursors for this enzyme from corn and rice. High scores for matches with Arabidopsis as well.; akhsdh
Putative protein of unknown function containing hydrolase and esterase/lipase domains; similarities to At4g36530-68296.m04043 AP22.96 putative protein (model%: 94, hit%: 77, score: 648, %id: 46) [Arabidopsis thaliana]; Putative protein of unknownn function containing hydrolase and esterase/lipase domains
Protein of unknown function. ABC transporter hits not significant.; unknownn function
nonsense mediated decay protein 3-like protein
putative Demethylmenaquinone methyltransferase
RT4, ribosomal protein 4, mitochondrial large ribosomal subunit
RT4, ribosomal protein 4, mitochondrial large ribosomal subunit, nuclear encoded, translation, protein biosynthesis
Putative protein of unknown function containing a metalloprotease domain (metallopeptidase), with similarities to cel:Y43F4A.1 zinc metallopeptidase (M8 family) (CE16622) custom_KEGG (model%: 38, hit%: 49, score: 271, %id: 27) [Caenorhabditis elegans]; Putative protein of unknownn function containing a metalloprotease domain
Most similar to bacterial homologues, only distantly related to plant plastid isoforms
cytosolic malate dehydrogenase. [catalytic activty](S)-malate + NAD(+) = oxaloacetate + NADH.[SUBUNIT] Homodimer (By similarity). [SUBCELLULAR LOCATION] Cytoplasmic (By similarity). [SIMILARITY] BELONGS TO THE LDH FAMILY. MDH SUBFAMILY.
transmembrane protein with sterol-regulatory element binding domain
based on sequence similarity to bacterial proteins and presence of SREBP domain,which in mammalian cells indicates role in fatty acid metabolism
Catalyzes the reduction of oxidized glutathione (GSSG) to reduced glutathione (GSH). GSH is an important intracellular antioxidant that reacts with oxygen free radicals and organic peroxides.
probable adenine phosphoribosyltransferase
Probable adenine phosphoribosyltransferase (APRT); similar to gi|2499931|sp|Q42563|APT2_ARATH Adenine phosphoribosyltransferase 2 (APRT) (model%: 100, hit%: 74, score: 364, %id: 52) [Arabidopsis thaliana]; limited EST support
3-oxoacyl-[acyl-carrier protein] reductase
description: [catalytic activty] (3R)-3-hydroxyacyl-[acyl-carrier protein] + NADP(+) = 3-oxoacyl-[acyl-carrier protein] + NADPH. [pathway] Fatty acid biosynthesis pathway; first reduction step. [similarity] belongs to the dehydrogenases/reductases (SDR) family; 3-ketoacyl-acyl carrier protein reductase
zinc finger protein similarity, PHD motif, DNA binding, transcription factor
spliceosome associated factor 3b, subunit 3; 130kD spliceosome associated protein
sequence similarity to hypothetical proteins from bacteria
UDP-glucose 4-epimerase; uridine diphosphoglucose epimerase; uridine diphosphate galactose 4-epimerase
Reaction catalyzed:UDPglucose = UDPgalactose. Note, requires NAD; may also act on UDP-2-deoxyglucose.; putative; galactowaldenase
Contains homology to protein kinase regulatory proteins and cyclic nucleotide binding domains; putative protein kinase
Contains homology to protein kinase domains
[catalytic activty] Butanoyl-CoA + ETF = 2-butenoyl-CoA + reduced ETF. [COFACTOR] FAD. [PATHWAY] Mitochondrial fatty acid beta-oxidation system; first step. [SIMILARITY] BELONGS TO THE ACYL-COA DEHYDROGENASE FAMILY.
Putatively involved in the synthesis of chitin, a polymer of 4-linked N-acetyl-beta-glucosamine: UDP-acetyl-glucosamine is presumably the GlcNAc donor.; chitin-UDP acetyl-glucosaminyl transferase; containing domain with similarity to chitin synthase
bacterial protein translation initiation factor 2
human U6 snRNA-associated protein LSm8-like protein
human U6 snRNA-associated Sm-like protein LSm8-like protein
This gene was identified based on sequence similarity to alpha-mannosidase from Listeria innocua (Alignment Length: 782 identities: 30.05% similarities: 47.06%). According to KEGG, alpha-mannosidases are involved in the hydrolysis of terminal, non-reducing alpha-D-mannose residues in alpha-D-mannosides. This gene contains IPR000602, which is a domain belonging to the glycoside hydrolase family 38. According to InterPro, O-Glycosyl hydrolases are a widespread group of enzymes (85 families) that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. There are two different sets of alpha-mannosidases, one type exists in the lysosome and the other exists in the cytosol. Cytosolic alpha-mannosidases have a higher pH optima and degrade free glycans liberated from lipid linked precursors or from misfolded glycoproteins that are en route to proteasome-mediated degradation (Varki et al. 1999. Essentials of Glycobiology. Cold Spring Harbor Laboratory Press, NY. pp. 269-274).
Putative protein of unknown function containg a metalloprotease domain (metallopeptidase); EST support; Putative protein of unknownn function containg a metalloprotease domain
Putative protein of unknown function containing an OTU cysteine protease domain, similar to gi|17558202|ref|NP_506709.1| (NM_074308) C25D7.8.p [Caenorhabditis elegans] (model%: 91, hit%: 88, score: 288, %id: 32) [Caenorhabditis elegans]; Putative protein of unknownn function containing an OTU cysteine protease domain
Putative retrotransposon, possibly copia-like, possibly retro-viral with domains including the catalytic core of integrase, putative pol polyprotein, and bounded by long terminal repeats
translation initiation factor eIF-2, gamma subunit
Conaiins high homology to hypothetical proteins from a variety of organisms, function unknown.
Contains homology to a hypothetical proteins from a variety of organisms and a esterase/lipase/thioesterase domain
protein a serine carboxypeptidase domain-containing protein
Putative protein containing a serine carboxypeptidase domain, similar to gi|2851577|sp|P21529|CBP3_HORVU Serine carboxypeptidase III precursor (CP-MIII) (model%: 70, hit%: 71, score: 376, %id: 30) [Hordeum vulgare]
some similarity to other organisms (42% amino acid idenitity); Supporting EST evidence.; oxidoreductase