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 Ga0070709_10000215

Scaffold Ga0070709_10000215


Overview

Basic Information
Taxon OID3300005434 Open in IMG/M
Scaffold IDGa0070709_10000215 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L5-1 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)37346
Total Scaffold Genes33 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)25 (75.76%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia(Source: IMG/M)

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)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F011172Metagenome / Metatranscriptome294Y
F061076Metagenome / Metatranscriptome132Y
F066009Metagenome / Metatranscriptome127Y

Sequences

Protein IDFamilyRBSSequence
Ga0070709_1000021517F066009GGAGGMLRWYGRREGRRIPRLVGCLIWLIALIVILIVLSLLFGGFTKGTKVSGAAPLVPRAVAQHASLPPR*
Ga0070709_1000021519F061076AGGAGGMNSYISLALAAERAKDMQSDAAIARYHRETRRARRAARRTRVTEQTVHGQAPDSYEDFLCQTAKSAMTEPTAAGRSAGQPVR*
Ga0070709_1000021530F011172AGGAMIETEIRPAGPALAAGDGANAADSSKSRLAMRLWTLLHAQALLRGTIGGAGSALNAEDDRWRLAAHRESAHRR*
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