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 Ga0137385_10408650

Scaffold Ga0137385_10408650


Overview

Basic Information
Taxon OID3300012359 Open in IMG/M
Scaffold IDGa0137385_10408650 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from Sagehorn Ranch, Mendocino, California, USA - Sage2_R_80_16 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1157
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 → Terrabacteria group → Actinobacteria → Actinomycetia → Streptosporangiales → Treboniaceae → Trebonia → Trebonia kvetii(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
CoordinatesLat. (o)39.5673Long. (o)-123.4758Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000863Metagenome / Metatranscriptome856Y
F017532Metagenome / Metatranscriptome240Y

Sequences

Protein IDFamilyRBSSequence
Ga0137385_104086501F017532GGAGGVTRPPDDSEPGRRPPDYVIVVPASDWITDRYPPAAASLTRALQAGQDRHRDPEPEP*
Ga0137385_104086503F000863GAGMRTTDNGITPRPRPAYRPPEDGPLPDLPLYERLIGDGIAAADGRGTAVDHLTARRLAIWLAARPQSPVFAQGLVRFVQTGAISHALKTQLRIHARSGTYPDRPEAARLMQYCIARGPDVGPIGENFAAACDQLDRADTMLKGLHDRARNGRTHLERTRPEID*
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