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 Ga0068864_101672381

Scaffold Ga0068864_101672381


Overview

Basic Information
Taxon OID3300005618 Open in IMG/M
Scaffold IDGa0068864_101672381 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Switchgrass S7-2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)641
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes(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?
F077696Metagenome / Metatranscriptome117Y
F089060Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0068864_1016723811F077696AGAAGVSVLEPPAHIVAGEAVADTVSDEPTETVTETVLEQPLEFVPVTE
Ga0068864_1016723812F089060AGAAGVAVSVLDPPGQIDAGDAVAATLRDEPTVTVTDAVPEQPLAFVPVTEYVVVEVGLTVILAVVCPVLHW*
Ga0068864_1016723813F089060N/AVSVEDPPAQIVAGDAVAATVMDEPTVTVTDAVPEHPLAFVPVTEYVVVEVGLTVMLAVVCPVLH*
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