NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0058863_10028202

Scaffold Ga0058863_10028202


Overview

Basic Information
Taxon OID3300004799 Open in IMG/M
Scaffold IDGa0058863_10028202 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere and bulk soil microbial communities from Kellogg Biological Station, Michigan, USA for expression studies - soil CB-3 (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2456
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Human → Digestive System → Large Intestine → Fecal → Host-Associated → Switchgrass Rhizosphere And Bulk Soil Microbial Communities From Kellogg Biological Station, Michigan, Usa For Expression Studies

Source Dataset Sampling Location
Location NameKellogg Biological Station, Michigan, USA
CoordinatesLat. (o)42.3912Long. (o)-85.383786Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F022024Metagenome / Metatranscriptome216Y
F031137Metagenome / Metatranscriptome183Y

Sequences

Protein IDFamilyRBSSequence
Ga0058863_100282022F031137GGAMDHAQFKAKQTAAVYVADGLDEHTLEDFEMHMMGCRECVEDVESWRAIKLNIPARVRPARAPAVLGRSAQAAVGWRMAASLIVGGVLGTAGGWFGHESQAPNLDSTQTTFFNVPAATRSGGDCTALRLAPDTKFAVLRVPGVSRDRKVIAADAEKRELPASRYTSRLQPDGSHLVRIERQALESREVFLEARAADGFGEPLACVTGEVIADR*
Ga0058863_100282024F022024N/AAAFREIADRPGSPVAAIVVASVPNKGEPTAGYPAAYDFRRIVRAIPIGNDDEPSPGISPAPPGLNLGAPSACVIGAGEPPAKYKLEQGSSNSTAILAGLLAGIWSSPRYAKLTPDEFLAGVVEGRMSKTARRSKPGARAPYLDGVPLADACLLATGRRSASVCRQPEAHREARP*

 ⦗Top⦘



© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.