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 Ga0207641_10477177

Scaffold Ga0207641_10477177


Overview

Basic Information
Taxon OID3300026088 Open in IMG/M
Scaffold IDGa0207641_10477177 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Switchgrass S6-2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1208
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes1 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (100.00%)
Associated Families1

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Candidatus Acidoferrales → Candidatus Acidoferrum → Candidatus Acidoferrum panamensis(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Switchgrass 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?
F016698Metagenome245Y

Sequences

Protein IDFamilyRBSSequence
Ga0207641_104771772F016698AGAAGMKRGLITWDKAELLPSVFDARLAKARAALAEQDLPALLVYSDVWRSNEGRHLTNYMPYWNRSLIVMPREGAPVLLCGLSPRVYPWIKSVTVFEEIRPASKLVPTLLQLCAERGWSKLGVLDLPRLPHEIHSPLQSSDVKTSDIKLELTDDAEVAMLRRAEQMTREILTAELPKGAGLTDYQFSGRLERAFRRAGAEDLVLLFRTGNSAPRQAHGAMLGDKYSVAVALEYRGHWARVTLGLPL
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