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 Ga0207650_10090381

Scaffold Ga0207650_10090381


Overview

Basic Information
Taxon OID3300025925 Open in IMG/M
Scaffold IDGa0207650_10090381 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S6-3 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2339
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

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?
F008444Metagenome333Y
F010880Metagenome298Y
F014022Metagenome266Y

Sequences

Protein IDFamilyRBSSequence
Ga0207650_100903811F014022GAGMRDEQVGNTTQVAARSAQPYRRHIVGLPLQRSLFGLTARAATTIGLPGLSSELDFPARLDENGDLFLDRSQVAALTKALRSWFTPETLELMHTTHTAACDALVDASETATRVAASLDGAARKLSEDLANKMALVLAYGILSKFVPDILLRALADAGDVEPPPFPEKSAGAELMQNTFSLYEACCALNYTPQRLQREWPRVPPEVFQLVSEFCKRQTGFGPLAWDSPGYEDPNYVVRLLHSAFNEVDAEQVHRRLSFSKKPAVARSTTGVSTKTAALRRVLGFWLDFLERETWYARRAFYLGMIPLLQQLAAGYRQKMPAF
Ga0207650_100903812F010880N/AMSYALKKGTRAKILLVYALDATDMRSGKTGLSSRTADSSAAYIREGEAIVRRTPLVEGKPGEHRAGSFIEVDSKLLPGVYQFGVPDEMLAAGAETVTLMLKFPGAVIEPIFIHLVAYDPQDAERLGMTALGPEGRINALRGAFPRLTENEFRNAG
Ga0207650_100903813F008444AGGAGGMPVQHTYTMKAGTKSKLLLVYATSAESTSGKTGLAKDLSVGSAAYIREGDSAARRVPIVAGRIGEWGSGALAEVDPELLPGLYQFGAPDEMVAEGSARAVLLIRFPNTVIKPVEIHLVAYDPQDAERIGVWSLAGHKRHEFLRQALPRFTEMELALGEQTEKELAAKLKAKKES
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