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 Ga0208923_1000552

Scaffold Ga0208923_1000552


Overview

Basic Information
Taxon OID3300027320 Open in IMG/M
Scaffold IDGa0208923_1000552 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - Freshwater metaG S.575 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8009
Total Scaffold Genes24 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (25.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
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)46.2Long. (o)-123.94Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F050364Metagenome / Metatranscriptome145Y
F060915Metagenome / Metatranscriptome132Y
F064721Metagenome / Metatranscriptome128N
F071252Metagenome / Metatranscriptome122Y

Sequences

Protein IDFamilyRBSSequence
Ga0208923_100055214F060915N/AMNKTNLNWKKKWLDDKSGYWYSAKVPIIGWEYIVDAHYDLGTDCGFIGGLYFSKFDDEITRVTNKFYKTEEAAMIACEKHLINTAEKFNNWINCEQK
Ga0208923_10005522F071252N/AMSNKYEKFTKKALDKMFTYVGFEGFNEEFTKQHEDWYQQKTWTMEQSADFKKWFITETKKDLKFNKSMAEREFSWFDLKWGWKVSDDPYFSKQKELVHD
Ga0208923_10005523F050364GGAMRADYKNTKIGDKIVFKQSTKHWFLNREENAKKLEAGKTYTVKEISVASSSTGVKLEETEELEYELCWFDKNETEESQRIHSRQMGCS
Ga0208923_10005528F064721N/AMTLKQKIVSIVIVGGLFRISEFIANIIMWLMRLFKTRKPHYLYICLKYEQDFIYPLAEKICYCLGLKKEWDVHQESLDRLEKLIFGEDANKD
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