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 Ga0157379_10001600

Scaffold Ga0157379_10001600


Overview

Basic Information
Taxon OID3300014968 Open in IMG/M
Scaffold IDGa0157379_10001600 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - S2-5 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)18672
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (53.85%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

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

Ecosystem & Geography

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

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

FamilyCategoryNumber of Sequences3D Structure?
F016064Metagenome / Metatranscriptome250Y
F016418Metagenome / Metatranscriptome247Y
F096853Metagenome104Y
F101050Metagenome102Y

Sequences

Protein IDFamilyRBSSequence
Ga0157379_1000160021F101050N/AMKGVRSGADAESAQQERQMSRGNREKKKPKADKSKLKPIEAATPFGAASNAGKAAGKRK*
Ga0157379_1000160022F096853N/AMFSRGQIFEGMVGGLRRSAKVIAIVDGGRIGWLEFMDTKGPPFELDVAKNSAWTLVRRER
Ga0157379_1000160023F016418AGGMSYRGYDLEQKTLMVGWQITITKDDKFIHNGSVTKSLASAVDEAERFVDRAIAEADGAPPAARL*
Ga0157379_1000160024F016064N/AMAQNLRGTVDYRGYSLQVTYAPPQWQVLIGVVLQDRPTLAPEKRIVRGWDEEETLKRAKMRIDLLIESPSLH*
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