Micromonas commoda chromosome 11, 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 CP001330.\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##
Predicted chromatin remodeling protein similar to Homo Sapiens CHD1L (chromodomain helicase DNA binding protein 1-like), a subgroup within the SNF2 superfamily of ATP dependent helicases. ChromDB ID: CHR20125; Snf2, Ris1, Rad26 superclasses
Multidrug/Oligosaccharidyl-lipid/Polysaccharide flippase
chlorophyll a/b-binding protein, psi-associated, chloroplast precursor
ChloroP and Target P predict a 30 aa cTP
Mnd1 meiotic DNA recombination/cross-over promotion
MND1 usually interact with Hop2/AHP2. Probably involved in strand invasion during meiosis. Closest ortholog in the Ostreococcus genomes Ostta4:19307 and Ost9901_3:33704
Predicted homolog of TAF-II-250, the 250 kD subunit of the TFIID transcription initiation factor complex, a protein with histone acetyl transferase activity. ChromDB ID: HAF20101
Predicted protein arginine N-methyltransferase similar to human PRMT6. ChromDB ID: PRMT20105
Encodes a protein with two CPP/TSO1 domains.
DUF1244/molybdenum cofactor synthesis fusion protein
Encodes a TALE superclass homeobox protein, related to GSM1 in Chlamydomonas.
sodium ion:calcium ion+potassium ion antiporter
Encodes a SHAQYF-like Myb-family transcription factor.
Member of the RUVB-like protein family; homologous to Saccharomyces cerevisiae RVB proteins which are involved in transcription regulation and are components of chromatin remodeling complexes. ChromDB ID: RUVBL20102
UDP-glucuronic acid/UDP-N-acetylgalactosamine
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
pfam 05684: Protein of unknown function (DUF819): This family contains proteins of unknown function from archaeal, bacterial and plant species
pfam 00270: DEAD/DEAH box helicase; [INTERPRO IPR0011545]; pfam 00271: Helicase conserved C-terminal domain; [INTERPRO IPR001650]; pfam 00098: Zinc knuckle; expressed
uncharacterized protein with WD40 repeat domains
dynein, 70 kDa intermediate chain, flagellar outer arm
sodium-driven chloride:bicarbonate anion exchange
Nuclear actin-related protein involved in chromatin remodeling, component of chromatin-remodeling enzyme complexes; predicted homolog of Saccharomyces cerevisiae ARP4. ChromDB ID: ARP20102
NADP dependent malic enzyme, chloroplast precursor
putative NADP dependent malic enzyme, chloroplast precursor(also called malate dehydrogenase), deduced by similarity search. Target P and ChloroP predict a 25 aa transit peptide
Encodes a prasinophyte-specific homeobox protein.
Has a reverse transcriptase catalytic domain
Predicted homolog of the CREB-binding protein, a co-activator of transcription with histone acetyl-transferase activity. ChromDB ID: HAC20101
expressed; conserved uncharacterized protein
Predicted member of the nucleosome/chromatin assembly factor group C (RBBP4 and RBBP7 homologs); highly similar to human RbAp46 and RbAp48 (Retinoblastoma associated proteins) - a WD-40 domain containing protein found in several chromatin regulatory complexes
H+-or Na+-translocating f-type, v-type and A-type ATPase superfamily
cupC20, conserved uncharacterized protein
contains pfam domain PF00155.11 Aminotransferase class I and II
Predicted homolog of Saccharomyces cerevisiae ASF1 (Anti-Silencing Function), a histone H3/H4 chaperone that functions in nucleosome assembly as a histone donor. ChromDB ID: SGA20101
serine protease/ABC transporter fused protein TagA (protein efflux)
Glycolate oxidase, excellent match to GOX from Ostreococcus. Glycolate oxidase is part of the photorespiratory pathway.
shows conservation to CCMP1545 and CCE9901; expressed; uncharacterized protein
Hit pfam domains Glycosyl hydrolases family 38 C-terminal and N-terminal. Glycosyl hydrolases are key enzymes of carbohydrate metabolism.
Has characterisitics of folate receptor family
Predicted SET domain containing protein. ChromDB ID: SDG20123
contains pfam domains PF00009.17 Elongation factor Tu GTP binding, PF03144.15 Elongation factor Tu domain 2 and PF03143.7 Elongation factor Tu C-terminal. expressed
highly conserved between CCMP1545, Otauri and CCE9901
shows some similarity to CCMP1545, Otauri and CCE9901
show similarity to CCMP1545 Protein ID 60097
CAB/ELIP/HLIP family also has similarity to PSBS. ChloroP predicts 42 aa cTP, target P predicts 28 aa MitochondrialTP...
SWI/SNF and RSC chromatin remodeling complex protein
Predictedf SWIB domain-containing protein with similarity to human SMARD proteins and Saccharomyces cerevisiae SWP73 and RSC6 proteins; potential SWI/SNF complex component. ChromDB ID: CHC20101; Swp73 and Rsc6 homolog
Predicted homolog of Saccharomyces cerevisiae SWD1, a subunit of the COMPASS (Set1C) complex
contains PF02260.9 Guanylate binding domain shows conservation to CCMP1545
Encodes a short protein with hydroxyproline-rich glycoprotein (HRGP) motifs
ChlRe radial spoke protein 7-like protein
contains EF hands, the EF-hands can be divided into two classes: signaling proteins and buffering/transport proteins
expressed; conserved uncharacterized protein cupA40
expressed; conserved uncharacterized protein cupA39
shows conservation to CCMP1545; expressed; uncharacterized protein
Predicted homolog of Saccharomyces cerevisiae YAF9, a subunit of both the NuA4 histone H4 acetyltransferase complex and the SWR1 complex. ChromDB ID: YDF20101
ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily which uses the hydrolysis of ATP to energize diverse biological systems
F-box domain containing - This domain is approximately 50 amino acids long, and is usually found in the N-terminal half of a variety of proteins
expressed; conserved uncharacterized protein cupA38
multidrug (P-glycoprotein homolog) (ABCB/MDR-type)
The IQ motif is an extremely basic unit of about 23 amino acids, whose conserved core usually fits the consensus A-x(3)-I-Q-x(2)-F-R-x(4)-K-K
early light induced protein-like 3, chloroplast precursor
CBR (Carotene biosynthesis-related) or ELIP; ChloroP predicts 28aa cTP. expressed
preprotein translocase Sec61 alpha subunit
DIP13, a small deflagellation-inducible protein in Chlamydomonas reinhardtii is localized to the nucleus.
ribosomal protein L3, chloroplast precursor
has homology to CCMP1545 prot ID 59975; hypothetical uncharacterized protein
similarity to early flowering 4 protein; expressed; conserved hypothetical duf1313-containing protein
distantly related to glycosyltransferases; unknown protein
tellurium ion efflux; tellurium ion resistance family transporter; hypothetical protein
EB1 (end-binding protein 1) family proteins label growing microtubule ends specifically in diverse organisms and are implicated in spindle dynamics, chromosome segregation, and directing microtubules toward cortical sites.
and pfam PF00155.11, seems to be of bacterial origin as all the hits are alphaproteobacteria and gram positives.
copper ion; Alternative splicing variant 2
Partner of MSH4 (MutS homolog 4) (MicpuN2:61120). Promotes cross-over formation during meiotic recombination.
3,8-divinyl protochlorophyllide a 8-vinyl reductase
Reduces divinyl protochlorophyllide to protochlorophyllide in some species, providing an alternative pathway. ChloroP predicts 18aa cTP whereas targeT predicts 35aa mTP
eukaryotic translation initiation factor-like protein
high homology to CCMP1545 v2 Prot ID 59868; conserved putative uncharacterized protein
MIF4G is the middle domain of eukaryotic initiation factor 4G (eIF4G)
has HECTc domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3)
Contains zinc finger CCHC-type domains,a IMP dehydrogenase / GMP reductase domain, and ankyrin repeat regions
Encodes a protein with hydroxyproline-rich glycoprotein (HRGP) motifs