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 Ga0070712_100111225

Scaffold Ga0070712_100111225


Overview

Basic Information
Taxon OID3300006175 Open in IMG/M
Scaffold IDGa0070712_100111225 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L8-1 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2044
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (33.33%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
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?
F005548Metagenome / Metatranscriptome397Y
F007088Metagenome / Metatranscriptome358Y
F012379Metagenome / Metatranscriptome281Y

Sequences

Protein IDFamilyRBSSequence
Ga0070712_1001112252F012379N/AMVTAAARPHVIWVGEDRERVRSWPIGAALLETLGDINADVQDALTDERARLSEHGYPDDLPLPALWWNPARSEDCEADKPLLVAVGV*
Ga0070712_1001112254F005548AGGVFRWLRSLFGRGRRDEASPIREAEAYARSYGERTGEIVSVVRQEPRPIPRRTGDMTGELLRRAFEVRLDSRGKAAH*
Ga0070712_1001112255F007088N/AMQLFLHDPTYTDRLAAFLTSVGRRAVVAAPDRVDLDDAPEDSQHLELKLYLRVWRVLYPDADVELAFG*
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