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 Ga0207662_10189409

Scaffold Ga0207662_10189409


Overview

Basic Information
Taxon OID3300025918 Open in IMG/M
Scaffold IDGa0207662_10189409 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S3-3L metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1327
Total Scaffold Genes2 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → 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?
F000573Metagenome / Metatranscriptome1016Y
F005008Metagenome / Metatranscriptome415Y

Sequences

Protein IDFamilyRBSSequence
Ga0207662_101894091F000573GAGGMLAWLRRLIVSVGIGGASYAFMLGIMVLSVVYDQEFEPIITFAFDAGRSITNWLDGLVSGTYWGQIAVNHLRERVNMTHVVLSIPAIVIATIFVGIPLNWFLGGTRSALQRIAIALVSVPATVMLAVTLFTFNALLPETYAALLRFADWIWQASLSALSSRGDSIPGTTKLVNIARQGFSGHHYVIMALCSVVASFLVNAAFAFATKPPETLSPAQLAVAWKNNHDQHP
Ga0207662_101894092F005008N/AMQKVNPHKAMTGKRHPSSSRSAPNLGQREAEVEKASETKLARMKSTSAHSAPGRFIAWCKQEQASIQQQLDLMETAKVLTGENRGSGWVDTTAESIERAKARLVELDSLLTESGAATVSKPKR
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