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 Ga0207675_100408382

Scaffold Ga0207675_100408382


Overview

Basic Information
Taxon OID3300026118 Open in IMG/M
Scaffold IDGa0207675_100408382 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Switchgrass S4-2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1339
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)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → Schlegelella → Schlegelella koreensis(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?
F016613Metagenome / Metatranscriptome246Y
F051497Metagenome144Y

Sequences

Protein IDFamilyRBSSequence
Ga0207675_1004083822F051497AGGAGMSLGALWYEVSPYVYLVVGLASAAFSNSDFGLVCSALLLSASFTILRWRRLYRSPDRLESRKYSRPR
Ga0207675_1004083823F016613AGGAGGMSLLQQIIDGALVSRQRLMQSREFYSPSERQGPARLALARWTNRVLEQPALSVARELAGLSGPELDELEAEFRSSPMRQRPQWVRYAVIVGIVLLVLAGMGLGLKALMSLGETGGGILQAVSVACLLMGLVPLGVVLISALGGLHLDLSYGTVGLYVGKLDEQHPWLYDARSLTRHGIAEEYRQRTLQERGHLRGADYILMRELVQAQEALARVRAARSVAEQFQSLPVAAQAIVHEPRLVRVGTARDNREPLNAEMSRAQAARPGQ
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