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 Ga0207699_10000002

Scaffold Ga0207699_10000002


Overview

Basic Information
Taxon OID3300025906 Open in IMG/M
Scaffold IDGa0207699_10000002 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L5-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)662194
Total Scaffold Genes595 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)483 (81.18%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

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?
F036397Metagenome170Y
F070462Metagenome123Y

Sequences

Protein IDFamilyRBSSequence
Ga0207699_10000002467F036397AGGTGGMLQGNRVMASVVTLMLALAIPCANVPGQAKAEKRIESFDPVEFMKSFRIGMSYAEVQGLLPKQAEQDILAYVPSEEAFLLGADISGQPTWSASFKFDTLDTPARRPEQLIEFSCSAGLSSRSESFETIVRKVTAAFGDPVEIDGSRERFRQAGWRVSGGSVLTLEYSTTPGGVANDVSIEFVIKKNLRHSLPDPKAVA
Ga0207699_1000000299F070462AGGAMQAFVIVWSLSLFFAVAAFGQRGPVRDQTIQRAPAARQLAAVRGEIVKITTPSKGMLLISVRPAKEFPEITVLARENDLVGTAVGRSGDADLLGLLSDDTHDDETITAAELNQGDIISVIYDPQLQNRVLEIYLH
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