Micromonas commoda chromosome 12, 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 CP001577.\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##
Nucleosome/chromatin assembly complex protein
Predicted homolog of Chromatin assembly factor 1 (Caf1), subunit A; Caf1 is a multi-protein complex originally isolated from human cells and named for its ability to assemble nucleosomes onto newly replicated DNA
Encodes a Tubby-domain containing protein (IPR000007).
mitochondrial iron transporter(ABCB/ATM1)
catalyzes the hydrolysis of phosphate esterified at carbon 5' of the ribose and deoxyribose portions of nucleotide molecules
Anaphase promoting complex 11 (APC11). Probably incomplete but not clear
also known as glycine decarboxylase l-protein
In addition to serving as the E3 component of 2-oxoglutarate dehydrogenase complex and as part of pyruvate dehydrogenase, this protein also acts as the glycine decarboxylase (aka glycine cleavage system) L-protein
chloroplast envelope protein translocase family
inner chloroplast membrane translocase (import) Tic55
Phosphoglucose isomerase. Phosphoglucose isomerase catalyses the interconversion of glucose-6-phosphate and fructose-6-phosphate.
Predicted histone H3 lysine 9 methyltransferase. ChromDB ID: SDG20106
sodium ion:calcium ion+potassium ion antiporter
Diacylglycerol kinase catalytic domain (presumed). Diacylglycerol (DAG) is a second messenger that acts as a protein kinase C activator. The catalytic domain is assumed from the finding of bacterial homologues.
photosystem II 13kD protein, chloroplast precursor
Photosystem II reaction centre W .ChloroP and TargeT predict 43aa cTP
H+-or Na+-translocating f-type, v-type and A-type ATPase superfamily
Predicted histone H3 lysine 4 methyltransferase. ChromDB ID: SDG20117
Multidrug/Oligosaccharidyl-lipid/Polysaccharide flippase
Contains Pfam N-terminal heavy chain domain PF98393.3 and heavy chain domain PF03028.6
candidate digalactosyldiacylglycerol synthase
In Chlamydomonas the flagellar inner arm dynein is a WD-repeat protein implicated in dynein arm anchoring. This models includes several pfam PF00400.22 WD-repeat domains
chloroplast outer membrane translocase (import) Toc64
contains pfam domains PF01805.10 SURP module and PF00076.12 RNA recognition motif (aka RRM, RBD or RNP domain) also shows conservation to CCMP1545; RNA recognition motif and SURP module containing protein, predicted
Encodes a protein with hydroxyproline-rich glycoprotein (HRGP) motifs.
Histone H3, core histone required for chromatin assembly and chromosome function. ChromDB ID: HTR20103
Predicted homolog of Saccharomyces cerevisiae Bre1 protein, a E3 ubiquitin ligase for Rad6p, required for the ubiquitination of histone H2B. ChromDB ID: HUPA20101; Bre1 homolog
candidate 4-a-glucanotransferase with N-terminal CBM20 module
CUP A4; expressed; conserved uncharacterized protein
PFAM 00581: Rhodanese; Rhodanese-like domain. Rhodanese has an internal duplication. This Pfam represents a single copy of this duplicated domain
PF00300: Phosphoglycerate mutase family; This family is a member of the Phosphoglycerate mutase-like Superfamily clan
Intraflagellar Transport or IFT refers to the cellular process essential for the formation and maintenance of eukaryotic cilia and flagella
multidrug (P-glycoprotein homolog) (ABCB/MDR-type)
RecA/Rad51/DMC1 proteins are involved in homology searching and strand exchange in homologous recombination. This appears to be the meiotic-specific DMC1
Aspartate/tyrosine/aromatic aminotransferase
contains conserved domain COG0436 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]
signal recognition particle receptor beta subunit (SR-beta)
Putatiave homolog of Saccharomyces cerevisiae CDC73, a RNA polymerase II-associated Paf1p complex protein
Anaphase promoting complex (APC2). cullin
DB hits are SelM. There is an apparent in frame Sec codon (UGA), however no EST support
Synonym: Molybdopterin synthase sulfurylase
carbohydrate-binding module family 20 protein
peroxisomal long-chain fatty acid (ALDP homolog/ABCD)
mitochondrial protein translocase family
inner membrane translocase (import) Tim44
chloroplast envelope protein translocase
putative outer chloroplast membrane translocase (import) GTP-binding protein Toc(IAP)34
Contains Pfam domain Peptidase_M50 Metalloproteases are the most diverse of the four main types of protease, with more than 30 families identified to date PUBMED:7674922
Contains multiple cNMP_binding domains (Cyclic nucleotide-binding domains) Proteins that bind cyclic nucleotides (cAMP or cGMP) share a structural domain of about 120 residues PUBMED:14638413, PUBMED:10550204, PUBMED:1710853
Contains Pfam domain JmjC The JmjC domain belongs to the Cupin superfamily. JmjC-domain proteins may be protein hydroxylases that catalyse a novel histone modification.
potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel
Contains Pfam domain Fe-S_biosyn This family includes HesB which may be involved in nitrogen fixation; the hesB gene is expressed only under nitrogen fixation conditions PUBMED:10217509
CUP_A1; conserved uncharacterized protein cupA1
Contains Pfam domain Myb_DNA-binding and a Myb-type HTH DNA-binding domain The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins
This model contains a PH domain profile and a protein kinase domain
Contains Pfam domain TPR_1 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins PUBMED:7667876, PUBMED:9482716, PUBMED:1882418
branched-chain amino acid aminotransferase
Contains Pfam domain Aminotran_4 Aminotransferases share certain mechanistic features with other pyridoxal-phosphate dependent enzymes, such as the covalent binding of the pyridoxal-phosphate group to a lysine residue
D-isomer specific 2-hydroxyacid dehydrogenase
Contains Pfam domain 2-Hacid_dh_C D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain is inserted into the catalytic domain, the large dehydrogenase and D-lactate dehydrogenase families in SCOP
Contains Pfam domain SUI1 In budding yeast (Saccharomyces cerevisiae), SUI1 is a translation initiation factor that functions in concert with eIF-2 and the initiator tRNA-Met in directing the ribosome to the proper start site of translation PUBMED:1729602
vesicle coat complex AP-1/AP-2/AP-4, beta subunit
Contains Pfam domain Adaptin_N This domain is the N-terminal region of various alpha, beta and gamma subunits of the AP-1, AP-2 and AP-3 adaptor protein complexes
Dynein heavy chain (putative flagellar inner arm dynein heavy chain)
proton-dependent oligopeptide transporter
has similarities to GT10 glycosyltransferases
Contains Pfam domains TMP-TENI (Thiamine monophosphate synthase/TENI) and MMR_HSR1 Thiamine monophosphate synthase (TMP) catalyses the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-hydroxyethyl)thiazole phosphate to yield thiamine phosphate
2-c-methyl-d-erythritol 2,4-cyclodiphosphate synthase
Contains the Pfam domain YgbB The ygbB protein is a putative enzyme of deoxy-xylulose pathway (terpenoid biosynthesis).
Contains Pfam domain Thioredoxin Thioredoxins are small enzymes that participate in redox reactions, via the reversible oxidation of an active centre disulfide bond. Some members with only the active site are not separated from the noise.
Contains a Pfam peroxidase domain Peroxidases are haem-containing enzymes that use hydrogen peroxide as the electron acceptor to catalyse a number of oxidative reactions
Predicted protein similar to the DEMETER family of bifunctional DNA glycocylases. ChromDB ID: DNG20103
SNF2 superfamily chromatin remodeling protein; predicted homolog of Saccharomyces cerevisiae MOT1, an essential abundant protein involved in regulation of transcription ChromDB ID: CHR20103; Snf2, Ris1, Rad26 superclasses