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_10007983

Scaffold Ga0209701_10007983


Overview

Basic Information
Taxon OID3300027862 Open in IMG/M
Scaffold IDGa0209701_10007983 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)6918
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (88.89%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

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?
F003528Metagenome / Metatranscriptome481Y
F004353Metagenome / Metatranscriptome442Y
F010390Metagenome / Metatranscriptome304Y

Sequences

Protein IDFamilyRBSSequence
Ga0209701_100079833F003528AGGAGGMAAKVSLSRDGIYDILIMDADGQHLELENFEDLDTARRRLPALASLYPGTKVTLWNRNTRDILAETDGY
Ga0209701_100079837F004353AGGAGGMKNVYRVFLPTMACLTLIAPVWSLPPSTTHDATVRGLSNEPNAPQQQSVSGKIASVEKSSFTLTVGQSQTPSERPNLRLDPASPKTMTFQLDKNTTVEGTLKVGANADVTYREENGANMAISVHVAS
Ga0209701_100079838F010390GAGGMRRSLVGVLCFITVIAGPAHGRSPIVAPVRVAAGTVLNFHLQTRLNPAGGDALDALPKGTVLQVKILDSIDSAVDRDGAEFHGSMVAPLVLGEDVVVHPKAEVRGLLVLLRSRRHPDGFRYELLLTGITDRGKSYDLTASLNPSFLDPGAQPAPGAESTTK
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