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 Ga0207684_10270366

Scaffold Ga0207684_10270366


Overview

Basic Information
Taxon OID3300025910 Open in IMG/M
Scaffold IDGa0207684_10270366 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1466
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria(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?
F000778Metagenome / Metatranscriptome895Y
F015755Metagenome252Y
F038429Metagenome166Y

Sequences

Protein IDFamilyRBSSequence
Ga0207684_102703661F015755N/APDKPEKPSEESAEWHWARAKSLRKNGFTKMAEEQEQIAQAIERRRQQAT
Ga0207684_102703662F000778AGGMSSGRVVIDAVKMAQRLLWQNLAPTHNLPDATTVMRFRDLVRSPAVQSALERSSDTFPAFALRALGRVLADRSRTDREIISRLWHVLDDPHLNEALGLPQNSRIA
Ga0207684_102703663F038429AGGMATYVIEFKTAAGEVLAISIPRTETAVIRHFQERMPYGLFVPDIP
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