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 Ga0105242_10428748

Scaffold Ga0105242_10428748


Overview

Basic Information
Taxon OID3300009176 Open in IMG/M
Scaffold IDGa0105242_10428748 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS M2-4 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1241
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Miscanthus 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?
F006605Metagenome / Metatranscriptome369Y
F105769Metagenome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0105242_104287481F105769AGGMQGKVCRLATRSGLVVVLAVSLTSAAAPAVRVAPAPKLLDLRVSNGSTPYAGDRPLLTTVSPNGDGFRDRAIVGFRLTKSATVELDVLQTVNVKRGKNTVQTISSVRHAFSRGRHRLVWTPARSLPSGTYVLELTVTDTQGRRRTYNDLPLAGRVRIRAPVVRIQRIGVSVGARYMPGQ
Ga0105242_104287482F006605N/AMRRLVWISALAFALAAPAVGFALSGDDDGTLSVKGGVGRVSLNFNGSAVGRLLRGSIQVTDPVAGDGVGFEFTNCDVERDKSDTTTNRNDTIRVCIGTNMRFRAIGGKYQVVIRGSGIYLSAVGTGLATLNGAGEDPSVGFDGAYSLNDKTYRSLPNFATTFTLAAPSVV*
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