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 Ga0207645_10000288

Scaffold Ga0207645_10000288


Overview

Basic Information
Taxon OID3300025907 Open in IMG/M
Scaffold IDGa0207645_10000288 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS M5-3 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)42109
Total Scaffold Genes32 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)21 (65.62%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → Unclassified → 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?
F013019Metagenome / Metatranscriptome275Y
F015146Metagenome257Y
F089136Metagenome109N

Sequences

Protein IDFamilyRBSSequence
Ga0207645_1000028822F089136GAGGMPVRLIELAIRARRQLGGGERTQFSFRLAFVIDLAYIGLGALGGAALGRAAAPLTPAGEQSPPACVAEAVQRLH
Ga0207645_1000028824F015146AGGAGMRHDEALAIREFYRRFSPALWKLARQAHLQPALRDDAVTDCLSDAAIHLMQPTAAVPANLTGYLVAMFRHRLANDRRAAHRRTATGTAAAWLSDGERVVREVVSEASIRASAGPAAEAPPLSPVLERLSRIIDAGITDAERQILRWVSASIPQRLIAEWLGITHNAARVRVLRLRERLIELALRDAGPWRPGERQELYEFFRRSGLSERARRAVEGSPAAGGPERSRRSAGRKPRKEGED
Ga0207645_1000028832F013019N/AGLMARSYLESTLAGTLPSFAAEWDAHRRSYSPTSPPDDAAFLAAFRAHLVSLLSAGRVAETSRFFYALERLLGEADPILRDLLDRDVIRALAIECRLAGIDSRLVEPYLGQRSRVVWSSPNTDTN
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