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 Ga0070709_10152390

Scaffold Ga0070709_10152390


Overview

Basic Information
Taxon OID3300005434 Open in IMG/M
Scaffold IDGa0070709_10152390 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L5-1 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1599
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)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → unclassified Gemmatimonadetes → Gemmatimonadetes 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?
F030218Metagenome / Metatranscriptome186Y
F047850Metagenome / Metatranscriptome149Y

Sequences

Protein IDFamilyRBSSequence
Ga0070709_101523901F047850AGGAGVNRRFATRASVVLLLALAPAGCALTLDATHLGVPVSLASSAQGPDSGTAFSVTKHSVYLLVGLVQVTQPN
Ga0070709_101523902F030218GAGGMKRMLSIMGTVMGLATPAAAQWAGMPAWNSPKGGTGVTFYGDYGAPNDNAGSGHAFGGRAALGIGTITLTAGVASWKPANQNARATSYGGTAAFRLVGGSLIPLSVNLQLGAAHNAQNASGLDTVPASTTVLGAVGFSVPLPTPGISIEPFFSPGIRYHKLSGAPVGVTDHQTNFGWVIGGNFSFGLVGVHVAYDSEKFDTGTHGVLGVGADVGLRLPMGL*
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