Micromonas commoda chromosome 6, complete sequence.
Eukaryota; Viridiplantae; Chlorophyta; prasinophytes; Mamiellophyceae; Mamiellales; Mamiellaceae; Micromonas.
Green evolution and dynamic adaptations revealed by genomes of the marine picoeukaryotes Micromonas
Submitted (22-JUN-2017) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA
Submitted (23-DEC-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 CP001327.\nURL -- http://www.jgi.doe.gov/MicromonasRCC299\nJGI Project ID: 4000189\nOrganism available from the Center for Culture of Marine\nPhytoplankton (CCMP) and the Roscoff Culture collection (RCC)\nContacts: Alexandra Z. Worden (azworden@mbari.org)\n Igor Grigoriev (IVGrigoriev@lbl.gov)\nAnnotation done by the Micromonas genome consortium as identified\nin the authorship as listed as reference 1 above.\nThis organism was isolated from South Pacific surface waters in\n1998 by S.Boulben. This strain was rendered clonal and axenic in\nthe Worden Lab through plating and a series of antibiotic\ntreatments. Subsequently, the axenic strain was deposited at the\nCCMP (CCMP2709) and RCC (RCC827). RCC299 is also referred to as\nstrain NOUM17.\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. We welcome collaborative interaction on the project.\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##
carbohydrate-binding module family 20 protein
candidate a-glucan-binding protein This domain binds to starch, and is found often at the C-terminus of a variety of glycosyl hydrolases acting on polysaccharides more rapidly than on oligosaccharides
phosphate:phosphoenolpyruvate translocator
shows conservation to CCMP1545, Otauri and CCE9901; putative apolipoprotein D/Lipocalin, predicted
Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations
ING Family of PHD Finger Proteins. ChromDB ID: INGF20101
Encodes a protein with hydroxyproline-rich glycoprotein (HRGP) motifs and WD-40 repeats
Has a Ferredoxin thioredoxin reductase catalytic beta chain. Ferredoxin thioredoxin reductase is a [4FE-4S] protein which plays an important role in the ferredoxin/thioredoxin regulatory chain
prasinophyte specific chlorophyll a/b-binding protein, chloroplast precursor
prasinophyte specific chlorophyll a/b-binding protein
ChloroP and Target P did not predict cTP but signalP gave a 23 aa cTP; putitave chloroplast precursor
putative pyruvate kinase, cytosolic. Localisation deduced by similarity search, no transit peptide predicted (ChloroP, TargetP, SignalP). Reaction: ATP + pyruvate = ADP + phosphoenolpyruvate
oxoglutarate dehydrogenase, E1 component
E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC); OGDC catalyzes the oxidative decarboxylation of 2-oxoglutarate to succinyl-CoA and carbon dioxide; TargetP predicts 27 aa TP
Has IMP dehydrogenase / GMP reductase domain This family is involved in biosynthesis of guanosine nucleotide. Members of this family contain a TIM barrel structure
photosystem II 13kD protein, chloroplast precursor
Photosystem II reaction centre W protein, PsbW. TargeT and ChloroP predict 37aa cTP.
putative violaxanthin de-epoxidase, chloroplast targeted
putative thiamine biosynthesis enzyme ThiH or related uncharacterized enzyme
considered to be a fat mass and obesity-associated protein, first identified using a fused toe (Ft) mutant mouse (in which FTO is deleted). expressed
Encodes a protein with hydroxyproline-rich glycoprotein (HRGP) motifs at C-terminus
ero1-like protein precursor /fumarate reductase
Endoplasmic oxidoreductin 1-like protein
Peptidase C1A subfamily (MEROPS database nomenclature); composed of cysteine peptidases (CPs) similar to papain, including the mammalian CPs; cysteine endopeptidase
The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins
radial spoke protein 12, cyclophilin-like protein
RecA/Rad51/DMC1 proteins are involved in homology searching and strand exchange in homologous recombination. This appears to be a Rad51D homolog based on its closest homolog in Arabidopsis
Also found in CCMP1545, where it is probably as part of a fused gene.
. Selenide, water dikinase. Gene name is SPS2 in Drosophila. In the selenamino acid metabolic pathway. Synthesizes selenophosphate from selenide and ATP. Synonym Selenophosphate synthetase.
basal body protein [OFD1], oral-facial-digital syndrome 1 protein-like protein
transcription elongation-nucleosome displacement protein
Predicted protein with similarity to the TATA-binding protein of Saccharomyces cerevisiae SPT15, a general transcription factor that interacts with other factors to form the preinitiation complex at promoters. ChromDB ID: GTF20101; TBP homolog
short chain dehydrogenase/reductase family protein
COG4221; Other than Ostreococcus more bacterial like
DEAD-box helicases are a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation.
hydrolase, carbon-nitrogen family protein
nitrilase; COG0388; Carbon-nitrogen hydrolase. This family contains hydrolases that break carbon-nitrogen bonds. The family includes: Nitrilase, Aliphatic amidase, Biotidinase, Beta-ureidopropionase.
SNF2 superfamily chromatin remodeling protein; predicted member of the imitation-switch (ISWI) class of ATP-dependent chromatin remodeling complexes protein involved in regulation of transcription
PATH: map00620 Pyruvate metabolism, S-(2-hydroxyacyl)glutathione + H2O = glutathione + a 2-hydroxy carboxylate [RN:R04090]
chloroplast envelope anion channel-forming Tic110 family
protein import-related anion-selective channel Tic110 homolog
signal recognition particle-docking protein FtsY
Transketolase, putatively chloroplast targeted (ChloroP and TargetP both predict 35AA TP)
SNF2 superfamily chromatin remodeling protein; predicted homolog of Saccharomyces cerevisiae SNF2, an essential abundant protein involved in regulation of transcription. ChromDB ID: CHR20116; Snf2, Ris1, Rad26 superclasses
Encodes a protein with hydroxyproline-rich glycoprotein (HRGP) motifs
Encodes a protein with hydroxyproline-rich glycoprotein (HRGP) motifs, related to ADAM metalloproteases
light-dependent protochlorophyllide oxido-reductase
Also known as PCR. ChloroP and TargeT predict 29aa cTP.
cold-shock protein with RNA binding domain
cupC1, conserved uncharacterized protein
translation elongation factor EF-1alpha/Tu
Mlh1 is involved in DNA mismatch repair and may interact with Msh4 in meiotic recombination. MicpuN1:60612 is closest to Ostta4|29370 and Ost9901_3|51248 in the Ostreococcus genomes. MutL homolog 1 (Mlh1)
conserved uncharacterized protein cup B008, predicted
60 KD inner membrane protein OxaA homolog; Oxa1
ubiquitin protein ligase, gene model incomplete
This UPL has a HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3)
Adaptin N terminal region. This family consists of the N terminal region of various alpha, beta and gamma subunits of the AP-1, AP-2 and AP-3 adaptor protein complexes
The endoplasmic reticulum (ER) of the yeast Saccharomyces cerevisiae contains of proteolytic system able to selectively degrade misfolded lumenal secretory proteins
NIFU/ISCU like (high similarity); IscU is a homologue of the N-terminal region of NifU, an Fe-S cluster assembly protein found mostly in nitrogen-fixing bacteria
conserved uncharacterized protein cupA36
early light induced protein-like 5, chloroplast precursor
CBR (carotene biosynthesis related) or ELIP; ChloroP preicts 31 aa cTP, TargetP predicts 28 aa mitochondrialSP
similar to CCMP1545 v2 Prot ID 60765; homology to expressed hypothetical protein
carbohydrate-binding module family 45 protein
Containing N-terminal hydroxyproline-rich glycoprotein (HRGP) like motifs
histone acetyltransferase complex component
Predicted homolog of Saccharomyces cerevisiae ADA2 protein, a transcriptional adaptor protein that is part of the ADA and SAGA complexes ChromDB ID: HXA20101
From Chlamy: Found in the flagellar proteome [PMID: 15998802]; identified in the flagellar basal body proteome [PMID: 15137946]; upregulated by deflagellation
ligand-gated ion channel family transporter
The Neurotransmitter Receptor, Cys loop, Ligand-gated Ion Channel (LIC) Family, GABA-gated chloride channel
Predicted High-mobility group non-histone chromatin protein. ChromDB ID: HMGB20104
Pedicted member of the JMJD4 Group in the JmjN_JmjC Protein Family. ChromDB ID: JMJ20107
Hits Rare lipoprotein A (RlpA)-like double-psi beta-barrel Rare lipoprotein A (RlpA) contains a conserved region that has the double-psi beta-barrel (DPBB) fold [3,4]
Encodes a WOX-like homeobox transcription factor.
monovalent Cation:Proton antiporter-1 family
resistance-nodulation-cell division superfamily
Dispatched segment polarity protein (cholesterol release)
Pedicted member of the Jarid Group in the JmjN_JmjC Protein Family. ChromDB ID: JMJ20103
Cystein-rich protein domains are also occuring in antifreeze proteins from insects
Encode a conserved protein containing WD-40, PH, and HRGP domains
Encodes a response regulator receiver with a CCT domain at C-terminus.
equilibrative nucleoside transporter family
dynein 16 kDa light chain, flagellar outer arm
Aurora-like kinase, translocates from the cell body into the flagella during gamete activation in chlamydomonas
Encodes a protein with three ERF domains
protofilament ribbon protein of flagellar microtubules
Rib72, a conserved protein associated with the ribbon compartment of flagellar A-microtubules and potentially involved in the linkage between outer doublet microtubules.
Nuclear actin-related protein involved in chromatin remodeling, component of chromatin-remodeling enzyme complexes; predicted homolog of Saccharomyces cerevisiae ARP6. ChromDB ID: ARP20101
Predicted histone H3 lysine 36 histone methyltransferase. ChromDB ID: SDG20121
Nucleosome/chromatin assembly complex protein
Nucleosome assembly protein; Predicted homolog of Saccharomyces cerevisiae NAP1, a protein involved in the transport of H2A and H2B histones to the nucleus ChromDB ID: NFA20101
monovalent Cation:Proton antiporter-2 family
intraflagellar transport particle protein IFT88
CDH1-Ccs52 - Anaphase promoting complex - Control cell division cycle
distantly related to glycosyltransferases; unknown protein
chloroplast envelope protein translocase family
inner chloroplast membrane translocase (import) Tic55
cyclic nucleotide dependent protein kinase II
Encodes a protein containing esterase domain with hydroxyproline-rich glycoprotein (HRGP) motifs at N-terminus
Predicted SET domain containing protein. ChromDB ID: SDG20111
Predicted histone H3 lysine 9 methyltransferase. ChromDB ID: SDG20110
Glutamate Tyrosine and Butanoate metabolism
Glutathione peroxidase. Top DB hits are to Chlamydomonas reinhardtii GPX proteins, followed by Drosophila
flagellar outer dynein arm-docking complex protein 1
Pyruvate carboxylase catalyzes a 2-step reaction, involving the ATP-dependent carboxylation of the covalently attached biotin in the first step and the transfer of the carboxyl group to pyruvate in the second
expressed putative uncharacterized protein
expressed uncahracterized protein, possibly thioesterase superfamily; hypothetical protein
conserved hypothetical uncharacterized protein
putative NADP-dependent malate dehydrogenase, chloroplast precursor. Localization deduced by similarity search, ChloroP and TargetP predict a 43 aa signal peptide (SignalP detects no signal peptide)
GTP binding/translation elongation factor protein
Multidrug/Oligosaccharidyl-lipid/Polysaccharide flippase
mitochondrial inner membrane magnesium ion channel protein (MRS2)
Has Dead and Helicase domains;DEAD/DEAH box helicase. Members of the Dead/deah family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids
shows conservation to O tauri; expressed
has PFAM domain for FAD dependent oxidoreductase
other than those in Ostreococcus this gene is very bacterial like (short chain alcohol dehydrogenase-like); COG4221
Encodes a protein with multiple hydroxyproline-rich glycoprotein (HRGP) motifs
Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions such as Elp3-related proteins.
Encodes a GATA-like transcription factor.
Serine/threonine specific protein phosphatase PP1 catalytic subunit
Predicted SET domain containing protein. ChromDB ID: SDG20109
riboflavin biosynthesis protein, chloroplast precursor
Includes: GTP cyclohydrolase-2(GTP cyclohydrolase II) and 3,4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase)]; ChloroP predicts 36 aa cTP; expressed
Predicted protein with no similarity to Histone H1 proteins
related to b-mannosidases / b-mannanases
Predicted chromatin remodeling protein similar to the RING finger domain-containing proteins in the SNF2 superfamily of ATP dependent helicases. ChromDB ID: CHR20122; Snf2, Ris1, Rad26 superclasses