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 Ga0208800_1000996

Scaffold Ga0208800_1000996


Overview

Basic Information
Taxon OID3300027193 Open in IMG/M
Scaffold IDGa0208800_1000996 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - Freshwater metaG S.541 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3530
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (10.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
Not Available(Source: )

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?
F009808Metagenome312N
F052594Metagenome / Metatranscriptome142N
F054865Metagenome / Metatranscriptome139N

Sequences

Protein IDFamilyRBSSequence
Ga0208800_10009965F054865N/AMEVKTNRFIIKYKEGIVSVAANDVAEAIERFKELRIETSAKELTIVPSDEMFKRKEELFKGSD
Ga0208800_10009966F009808N/AMKKNFNNQNFEWLFQDITSSMPKIIFTGIILTYLITAALNVYFLPLPLLLSIPASLMLQFGRFAVVFIDFLNPSDKRSKYPPRVAAIATVIALLELWFSIQGQSTGAEFWAMFFFIGAIICFGYVLEIQFIEKGIEAYGIGVKEPRTRRRVVREVTKTNISSTQPIKFTMAVCFILTVAYLPAQNNHFFAYNAMSVEKIDKGLLERRYYSEANESYTIDTITYDLLSGINLWDGYSRTTYDNTMFMTYGTQNFEYFPLTGVWKYKNKYYDYIGLLKFVSKYFKRNFLNKKITYGKIRRH
Ga0208800_10009969F052594AGGMAVKTYGLDKKQIALCDAMIEKYPKGIRTNNVVSSASTLVSFYNSKDERNKQFYEYMNPERMVSLLWQVVKINNEKEDVKESAVRMLNKLLQIVVN
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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