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 Ga0068858_100042402

Scaffold Ga0068858_100042402


Overview

Basic Information
Taxon OID3300005842 Open in IMG/M
Scaffold IDGa0068858_100042402 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Switchgrass S1-2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4219
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Switchgrass Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan, Kellogg Biological Station
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002032Metagenome601Y
F097550Metagenome104N

Sequences

Protein IDFamilyRBSSequence
Ga0068858_1000424023F097550GGAGGMPRKELTADERKVLAENWKTFGRYLRAQRIMRGFTQERAALAAKVSTRQWVRYEQGSRVLFKRFPLIAKALNVSFARIAYLAGYKTPPKRNDANAQLRRIHDLLRIGRLDLALESFLLLYYHIGRLDPGLNSYLDGGIAPANFATAVISLDRLPKWLFEVIAQCMQKMFSDRQDPKWLTYNLRRVVLKECTDEMQKKLSPMSLQVPGFIP*
Ga0068858_1000424024F002032AGGAMPDNTITGTHAKGETPYAVVNLTPSDLEPKDWAFLREWANRLNVSLEVLLKRILIAAVIGQLYAEKITEI*
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