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 Ga0070665_100013473

Scaffold Ga0070665_100013473


Overview

Basic Information
Taxon OID3300005548 Open in IMG/M
Scaffold IDGa0070665_100013473 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S1-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8225
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (77.78%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → 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?
F001306Metagenome / Metatranscriptome727Y
F001844Metagenome / Metatranscriptome627Y

Sequences

Protein IDFamilyRBSSequence
Ga0070665_1000134737F001844AGGMLEPALSWLRSLKDPFRNSNAAVQWIAGLPTTDAIALQKEALELVATFPGSRSVVGPAQAEALLRVDARVEPVLAQLAQQYAANYQKSTDVETRLWHSVFDLVKAFTAAYGAVLRAGYPRVEHKRWHDLLPWILVRLVHYRGVDAKFRLFRYGTWVPAQWREFHELYEFARTRGWQRNELAYGAGMFSRPGVCVEQEYLKTLLLMRLDSGNFTPDQVEWVARQLDGWAGSLMLVPPPGSGASFFVDLTASQGLRRQDKAPSGDRVLLLDAGPIYTQIVERMRWLPERDDDAPRPDEPPPREQRLLLMRLASLYGPDAIAQSPRATRFSTDADVRVVVGLAPLTRAIAEIERLPDNARTPGIAASYDEITDMVAPGVGPEAAMRRVRGVIWKMEDRSDTGCRLTAPAKEAPAKLGEILAMKEGDA*
Ga0070665_1000134738F001306N/AMQRHQVDETTVGIEIVGRRLVRVLMRNWVTPSDSVRAGSDRPFFGIYLPAHPENRQMAQRSLIGPDERFVTGGMVELDTGDARYLIRFTQTLERQPGWAWTLFSAVRKLTA*
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