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 Ga0207699_10346745

Scaffold Ga0207699_10346745


Overview

Basic Information
Taxon OID3300025906 Open in IMG/M
Scaffold IDGa0207699_10346745 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L5-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1047
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia 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)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F024165Metagenome / Metatranscriptome207Y
F054230Metagenome140Y
F092601Metagenome107Y

Sequences

Protein IDFamilyRBSSequence
Ga0207699_103467451F092601N/AETVELTEQQSARMAELPEDYRVVGVERRTPLVRKPSGQIIRIQQNGRMTAATIADRRRLAAVARRRTATTKETPDGTNHRDA
Ga0207699_103467452F024165AGGAGMARIIVMPDATHLKEGISGTILYAEQVAPEHLDDLISSEQILERLEGAVRGAKVTA
Ga0207699_103467453F054230AGGMNMLLTGRQLERLRELPPDHEVLTARDGAPILVRPDGRLWRVQPNGSLAPAPPVETVRSYPRVAE
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