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 Ga0105238_10000020

Scaffold Ga0105238_10000020


Overview

Basic Information
Taxon OID3300009551 Open in IMG/M
Scaffold IDGa0105238_10000020 Open in IMG/M
Source Dataset NameCorn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS C3-4 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)211643
Total Scaffold Genes178 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)97 (54.49%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

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

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameMichigan, USA
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001605Metagenome / Metatranscriptome664Y
F006090Metagenome382Y
F016574Metagenome / Metatranscriptome246Y
F054444Metagenome / Metatranscriptome140Y

Sequences

Protein IDFamilyRBSSequence
Ga0105238_10000020154F006090N/AMSLLLQRKGPAAPLPRLEGKEVLVGPNPDAAKVKGVMFGGRKQFLNEVAGEEGFAAIIAKLTPRTASYTKTPLASSWCEFASVIELDRTVYETLKQKYPNVLALIGASSAELGIGRVYKSLDSTELVKFMESQALFHNQFQKFGNVRFDKTPNGGRMLCSDYPVYSPIYCASAVGFYLESILRHGGTDPTVVETKCQTLGDSHCAFEMTWR*
Ga0105238_10000020156F054444AGCAGMSSRSSAQPRRSWASDVYKSLDNTKLVKFMESQALFHNQFQKFGNVRFDKTPNHGRMLCNDYPVYSPIYCASAVGFYLESILRHGGTDPAVVETKRQTLGDSHCAFEMTWR*
Ga0105238_100000208F001605N/AMVSNVFFEPMSVTQSEPQTLSEVPFKVLDETLRQLRSTRNDIIRYGVWNTRNLTDDEFNHADDRKLLGYFRQDLLETRFLSKGRKIDLIQLWHWFDDQMTGTEPMLINGEEHFVNVQDKDLEKVRKRISEIQSFLPTLRGDDLEAFKRVKYKLRRTVLRLTYDLHHLFKRLEKYRKNFGGPMAPRADRIPLEAAVDIPEPPPIDEHDHDAE*
Ga0105238_1000002095F016574GAGGMLEIDIVDRIRHIFLHPRPHVSISQATALLGWSRRRMSEAIEAGEVELWTTPVGKWFPRAEMMAKALEVWPLHVIEEALGADSAGVLPQAIRCAELRVRLPRHHIEMLEYRADQQETTVSGVLERELDGIASAHIEELSAALPGFAEAMAWPAG*
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