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 Ga0070704_100813286

Scaffold Ga0070704_100813286


Overview

Basic Information
Taxon OID3300005549 Open in IMG/M
Scaffold IDGa0070704_100813286 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-25-2 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)836
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus 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?
F000739Metagenome / Metatranscriptome913Y
F010188Metagenome / Metatranscriptome307Y
F018044Metagenome / Metatranscriptome237Y

Sequences

Protein IDFamilyRBSSequence
Ga0070704_1008132861F010188GGAMPVVGSSAYNSAGQITSLVRSLLNDAQGNLFTDTVLLPYANSAYRKLQRALGNAGGGGFIQDDALLVV
Ga0070704_1008132862F000739GGTGGMKQLELKQFEFWLKGVVAAAISGGAGGVLTGFAAVGIDPQHFNLQSGTGATLRIAVAAALINAVIGVAAYLQKSPLPND*
Ga0070704_1008132863F018044N/ATPTVAEHVARAIEFSRRSPRSLKKRSLDSRAQREERSYETWAYDQLDDAVPAFHKQPFVTVA*
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