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_1000013

Scaffold Ga0208926_1000013


Overview

Basic Information
Taxon OID3300027205 Open in IMG/M
Scaffold IDGa0208926_1000013 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)38903
Total Scaffold Genes59 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)30 (50.85%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
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)46.2327Long. (o)-123.9168Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F011666Metagenome288Y
F015093Metagenome / Metatranscriptome257Y
F088884Metagenome109N

Sequences

Protein IDFamilyRBSSequence
Ga0208926_100001333F011666N/AMEWHPIERTQESQFSEIATAKMLEEWLKHGDIKGIYNAALLLNTMLHQQRTITKWLAGEAARNLGRPDLEDDILQKSIIQSE
Ga0208926_100001343F088884GAGMKLFAPEHAGKHVWQVADAKTRSVSYTANNSTSPPPDAVHGHPLGRYDGDGLYWTFVPMSGEEDPRSPRSGRYSKHPLAQEEQRRAVKEKVWGRLDSFGSYKETEF
Ga0208926_10000136F015093GGAGMRIQMLRDTIVDLKQVKVGDFVETDKKSALLLIGIQKAIPAPLSQEVVVTADEQPDPVQSKPAPKRRKTNDPQPGV
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