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 Ga0068861_100055841

Scaffold Ga0068861_100055841


Overview

Basic Information
Taxon OID3300005719 Open in IMG/M
Scaffold IDGa0068861_100055841 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Switchgrass S4-2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3012
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → unclassified Proteobacteria → Proteobacteria bacterium(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?
F041831Metagenome159Y
F103794Metagenome101Y

Sequences

Protein IDFamilyRBSSequence
Ga0068861_1000558411F103794N/AKVEAPRVYRIVATGTYGRVKKKITAILDTKRVLANPQTMNPAAEKAAGILQYWREE*
Ga0068861_1000558413F041831GAGMPVNPFGNVRQVIGRAFRWPVEVIGAEWARMAPRTRRLALALLAVIVGLVVLGGSYLTFSNISTMREENDAIREALGEISKHHDEYLDAKTRNAVQEARIGNDPPQLTADVEAAARGENVQIAETNERQVAPAPGSRRYLEHDLDIKIREVDLQSLTKFMRRVETGPRFVFFTRVALKHRYSETDKLDAELTATAFEKVKDDKKKKAAEASKAAGKKE*

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