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 Ga0209488_10251245

Scaffold Ga0209488_10251245


Overview

Basic Information
Taxon OID3300027903 Open in IMG/M
Scaffold IDGa0209488_10251245 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - Rivendell_Oct2014_Saprolite_2_DNA_Bulk_2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1326
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: California, Eel River Critical Zone Observatory
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002886Metagenome / Metatranscriptome523Y
F066023Metagenome / Metatranscriptome127Y

Sequences

Protein IDFamilyRBSSequence
Ga0209488_102512451F066023GGCGGMMGRPGKTMSEVASAPALGQLGRLSTTRARRDRLNPLEALERGFALFQSTFAREAWRYYAGAAPLVVCFIPMWVINGQIRLSNGALLTETALLAAAYLLR
Ga0209488_102512452F002886GGAGGVPNTFRKISRVGSLTGGTKWYLSEDCLLAAKRVMYAVEYRRFYLRDLESIVVWPNRLWLLRPIIPAVLLGAFGALWYRTNFTVCAIFGGMGLAWVLLELALGPTAKTRIRTTGVTVNLPLMWRTRRARKLLAKIDVAVRAARGGVSERPTAPVVAAQPAEPALQKTSETASATAPIEDLT
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