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 Ga0070699_100004825

Scaffold Ga0070699_100004825


Overview

Basic Information
Taxon OID3300005518 Open in IMG/M
Scaffold IDGa0070699_100004825 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K1-50-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)11902
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (88.89%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria(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?
F025843Metagenome200Y
F053935Metagenome140Y

Sequences

Protein IDFamilyRBSSequence
Ga0070699_10000482515F053935AGGVAGKVKPASRLVLGKQIKAQFGDGKWHSFETIVTKTGARAKRVWSTLDLMCRWGTYKTKCERKKIGMDYHFRLSPKDKQISVHELIEKLTPILKELEVQGRANAATMSPPTVRIMTAKIQKLLEEWADDRPAGQGTRRTRSSLTRPL*
Ga0070699_1000048252F025843GGGGGMKMKVAAVASSLLVSVQTASAQFYNRYYDPNANFYYQYEESPAAENDLADAKARRDKAREEREKTGKSDVGARLRLQQECVRALERGVEDGVRRSLGCSD*
Ga0070699_1000048253F025843GGAGMKMKVAVVASLLLVSVQTASAQYYYVNPYSGPNSFFYQYYWGSPAAEDDLAYTKALRDKARIEREETGKSDVGARLRLEEECTRAIERGVEDNVRRSYGCGD*
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