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 Ga0209701_10057226

Scaffold Ga0209701_10057226


Overview

Basic Information
Taxon OID3300027862 Open in IMG/M
Scaffold IDGa0209701_10057226 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con2H3.8 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2488
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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?
F052726Metagenome142N
F055501Metagenome / Metatranscriptome138N
F067483Metagenome / Metatranscriptome125N

Sequences

Protein IDFamilyRBSSequence
Ga0209701_100572261F067483N/APAGCVVVMRCAGEFRVENSMSDTDFVQITATTDHVTGQALLYALTRAGYVWQYDFSKQRWEILPTTRA
Ga0209701_100572265F052726GGAGGMTDSSASTSEHVYRGWKIRITDTAVDTKSSARVEVWKPEHDPSSHSGIVVPFLKRAASPADAHVAALAAAKEWIDAEMV
Ga0209701_100572266F055501GGAGGMTRCWPCVVVTMCCCLLAVATAAHAESWMLWQQATVFTERWWVPKGWSSHWRATELTPVGLAEFPTLADCEVAQTHAVSRDANLAREGEAKEKSGTSVARSVNRFACVPLGWRPRRIEPG
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