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 Ga0207646_10639360

Scaffold Ga0207646_10639360


Overview

Basic Information
Taxon OID3300025922 Open in IMG/M
Scaffold IDGa0207646_10639360 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)954
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria → unclassified Candidatus Rokubacteria → Candidatus Rokubacteria bacterium(Source: UniRef50)

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?
F025253Metagenome202Y
F040564Metagenome161N

Sequences

Protein IDFamilyRBSSequence
Ga0207646_106393602F040564GAGGMGSAAQGSMVTLTALCCDEATVVLCSRLRKLGFEVSWLYMDELRHGRIEPQALADSDPPDLILYDLDEPVDESLLLLTLFRSLPGMGAVPVVLLRTAQMPLPPLDAPGIVAVLTRPCEAALARTIIEAALRDGVDGRDEAA
Ga0207646_106393603F025253N/ARVDEFIDAPRALFGRTRAELERTLGTPTAVRPRDGAMLLSWPGLDVAVSRSSRVAAVVVRVAGRPLPHGLDVGTPRARVEAVLGEAQEASDERYAYVDADGFPNSVEFFFREGRVTRIEWRFWAD
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