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 Ga0207708_10011594

Scaffold Ga0207708_10011594


Overview

Basic Information
Taxon OID3300026075 Open in IMG/M
Scaffold IDGa0207708_10011594 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-10-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6568
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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

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?
F023084Metagenome / Metatranscriptome211Y
F066681Metagenome / Metatranscriptome126Y

Sequences

Protein IDFamilyRBSSequence
Ga0207708_100115942F023084AGCAGMALVPSVCVALSLQGCGVSTSTVDLTPGPEPIELTVTPEVIQAGGWAEVKVVSPSADSIAIESSNGLDRYWERGSQIRARLDSDFGDSLPPISYAVRDHGHLFNVLKKPMKVVVCRKSYCREYYHEIAIQLPERNERSVAVTGGWSSAFTRRAVTGADKSILLRQALNHTVWNLQAEVATGKFSGRVQGFYGADERGGSLDLSREISKMGEGMSYGLAMHVSATHAEWLPTERSAVLTQGTAYRASFGPSIMVKGLTASSQLGIYTDGRETLQEVSTFVSLNGGLTEVRSPVTVTLEKTFAFGGEPMIPRRSDQLERLTLGLDIVRNFAVRFGMTTHRSAWPTADRASDLRASEVYYTVGGQYTLSW
Ga0207708_100115945F066681GGALGGDTFSAHCIVPPGLGGFLLRILALSGLAALTFTLGSLAPAPIALRPDTSRAALASLGEEYGDLQQWAVAVLAATDTLQPASAERARALADQLARLISPLEGDFENTTAALSTNQLDMVLPLWERMAFAHAGLVMLQEQAAALGQDPVVAPAELHDLAFQLSAVLDFAEEIQRMVLDQLTLPVDTSIRAL
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