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 Ga0209283_10192481

Scaffold Ga0209283_10192481


Overview

Basic Information
Taxon OID3300027875 Open in IMG/M
Scaffold IDGa0209283_10192481 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con2H1.8 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1355
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria → unclassified Candidatus Rokubacteria → Candidatus Rokubacteria 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?
F005854Metagenome / Metatranscriptome388Y
F025841Metagenome / Metatranscriptome200Y

Sequences

Protein IDFamilyRBSSequence
Ga0209283_101924811F005854GGAGGMKRIAPGPSMRRRAIDELDIDLLGSLEDRDKRLYALLSKTTRYRNILRGKIKRLRAGSAPEEIRALLIQWAPIIREIKRLAQDL
Ga0209283_101924812F025841AGGAGMRPILSMGVLALVGWTLAGCAAGRPTSLIRMRGGYELLAAHCEAWAESCLPMRMTGDPGDEQAWGFRARPVNAAGSLWKESEVFYAVGNRARCDEVRAALGTPSEACWGPVYFRRE
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