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 Ga0070670_100159199

Scaffold Ga0070670_100159199


Overview

Basic Information
Taxon OID3300005331 Open in IMG/M
Scaffold IDGa0070670_100159199 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S6-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1956
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes1 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (100.00%)
Associated Families1

Taxonomy
All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → Nitrospira → Nitrospira japonica(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Switchgrass 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?
F058186Metagenome / Metatranscriptome135N

Sequences

Protein IDFamilyRBSSequence
Ga0070670_1001591993F058186AGGAMKSLAFVGVGVLLSTTVCSLVDSRAEEKRPQNSFSAAHCHGSIAKTEWTLADGNSPTPTCVEGKDLTKGVLAFDADEAQGALVPFTLPGHFTGKLNVKLTWQPASTIGSVGWCVTLVTGSNLKRGGGAPLTQAARSCASDPAKKSPQHLTTALVINVPATAPAADNDVWHIRVSRDANSSVVLDDMPGDARLIGVVIETQEAPRQTL*
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