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 Ga0207710_10001250

Scaffold Ga0207710_10001250


Overview

Basic Information
Taxon OID3300025900 Open in IMG/M
Scaffold IDGa0207710_10001250 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S2-4 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)12865
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (76.92%)
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
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Switchgrass Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameMichigan, USA
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F018607Metagenome234Y
F100927Metagenome102Y

Sequences

Protein IDFamilyRBSSequence
Ga0207710_100012505F100927AGGAGMEANFEQQPIAMNVSSMQVEDSVKSRILERIKAQMDQDSADPVGWPIPPIYLKAPDDWP
Ga0207710_100012509F018607GAGGMPTVYRYSLCVVLMSCLLASGCRTAKELGKSLGDLEKVRAELIKKFGEEGVNLHINTGPRSSTISVLYANSPLNQKSTEERAKRAQETAEIVKQHYSSIKSVSEIWVVFLRVTTRLVVFHWSEMIDAHGFDNEARALSDPSNASFDPGQPVVRYSPKENKTEIASSGIQLEGTGEKGVMVVPHFSVAGDANKVRPKPPDEVGLDFAAFSEKPKFPNVTKLVFFSDNKVVYLTEGQFSTSKIAEDMYSEFLYLKIPTAAFLDITSGSTIKIKLNKREYTLTESQVQQLQRMSDYLKVK
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