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 Ga0209076_1000078

Scaffold Ga0209076_1000078


Overview

Basic Information
Taxon OID3300027643 Open in IMG/M
Scaffold IDGa0209076_1000078 Open in IMG/M
Source Dataset NameVadose zone soil and rhizosphere microbial communities from the Eel River Critical Zone Observatory, Northern California to study diel carbon cycling - Rivendell_Oct2014_Saprolite_2_DNA_Bulk_3 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)11851
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (76.92%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Archaea(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 NameEel River Critical Zone Observatory, California, USA
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006617Metagenome / Metatranscriptome368N
F008019Metagenome340Y
F030029Metagenome / Metatranscriptome186N

Sequences

Protein IDFamilyRBSSequence
Ga0209076_100007811F030029GGAGMLTIVPLLKQTLLTYADKPGEFHRELQFYFGFGALTLERMIVKELFQKLNLHYPSNNELDFETSIDLARKDLGSVQRGAAKK
Ga0209076_10000782F006617GGAGMLLWYVWIRLVDGAWHRLDEISKQLRLPSNAIEWAAKFLCDKGMAERGFEENEIRLSRGNARLEDAVKALSSSAKSSK
Ga0209076_10000783F008019GGALDTVETFLGVRKKIVVSVLLIIIVALAVWQFTSPKLLPPVGNKYSISGPYSNRGSWTLPETMRYGRAYMAISISNVTFPRTGIGTDYSLLVSNANQTITNSIVKGFGVRVTSMSIQDNVDGSTSTWGNGNAPGDAVQATSIFFFRTSTNHMLRFTVTFQMYDLLPLGSLPDQTVTSSFNITQTVL
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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