NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0208926_1000183

Scaffold Ga0208926_1000183


Overview

Basic Information
Taxon OID3300027205 Open in IMG/M
Scaffold IDGa0208926_1000183 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1449B-3 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)12133
Total Scaffold Genes22 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (45.45%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2327Long. (o)-123.9168Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F007030Metagenome / Metatranscriptome359Y
F013755Metagenome / Metatranscriptome268Y
F091372Metagenome107N
F103227Metagenome101N

Sequences

Protein IDFamilyRBSSequence
Ga0208926_100018318F091372N/AMNIKYDLNRTKLLNEAPRLIKWAIDKGLMSYPLSQKYHDDGSLDPGIEEEIHVDPDQYTPEFCQRAYELRQLGLTLDDTAKAIGVSRGSITYILAKGHEAILASDRIKHDLKQP
Ga0208926_100018319F007030AGCAGMNDPFIYAPQPKTVVNEPTTSGTRPSIHVSLYAYGGISAACMMSWVGLTATFSVGDRQTDLRTIREDALISRSRCRATKWFLDSGKDVWVQIDHDIEFDPKDIIRMAELAHEHQATVCIPYPCRTIPPRPALRPKADHLQALKFQLANAEAAPELVPIQMFASGCLAIPRKRLIETLETLGSVKVLHPYRIEWCKDVKVGEFPTLWLPMAVETLPGQLEYLSEDFAAAMRMSLCEVPHFAMMPKKQLNHWGEYPFSFKPYAG
Ga0208926_10001838F013755GAGGVSDTPISDSTAHNVADLAMLCRRFERFAAGRQAYIDQIEAENDALRADLLLWRDTEAK
Ga0208926_10001839F103227GGAGGMKDSPAFIYVHKTNGAIRVESLETARRVDNRPEWKHVSTVNPHVCLENILTASTRQRTQYIKDLLK
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