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 Ga0207700_10756986

Scaffold Ga0207700_10756986


Overview

Basic Information
Taxon OID3300025928 Open in IMG/M
Scaffold IDGa0207700_10756986 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L8-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)868
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
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 → unclassified Alphaproteobacteria → Alphaproteobacteria 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?
F000037Metagenome / Metatranscriptome4230Y
F006088Metagenome / Metatranscriptome382Y
F006226Metagenome / Metatranscriptome378Y

Sequences

Protein IDFamilyRBSSequence
Ga0207700_107569861F006226N/AIVVNTAVARRLALGDRVVWIGEDDYQPSGPGMITRITAHQVEVRWEDETARRYRRAQLQNLRHRKLVCELHEARGA
Ga0207700_107569862F006088AGGAMSSERDACLRKADDAKQRAAQATEPFMKSAYEKVAEHWTLLARLESLIGNEKINEDA
Ga0207700_107569863F000037AGGGGGMESDYLILRRALAFRPSGEWNDDDYDVLCNGVVVGRIMQAAAVPVGMSWMWTLAFGHHEDRAKTHGYAATREAAMAAFAKSWRR
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