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 Ga0207697_10001379

Scaffold Ga0207697_10001379


Overview

Basic Information
Taxon OID3300025315 Open in IMG/M
Scaffold IDGa0207697_10001379 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA, with PhiX - S5 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)13305
Total Scaffold Genes19 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (47.37%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameKellogg Biological Station, Michigan, USA
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F010181Metagenome / Metatranscriptome307Y
F013034Metagenome / Metatranscriptome275Y

Sequences

Protein IDFamilyRBSSequence
Ga0207697_100013792F010181AGGAGGMMKGRQALLFTSDIEFESVVRQALLGTDTVFLVARTVSDALQIACQRGRELDLAIMTFGEGCHGMTLLSAIHDCYNQLPTLVVVEKDSGHASALAYANGACACLSKPVSLAELTNAIAALQPTARQLAVA
Ga0207697_100013794F013034N/AMKTARGRQWLFVATALALSGVRATADDANSGEPLVQARFDQLIPTSYPTLRPSFDRLIQTTLPLTDPGIARVPITENLVHPLDQPLVIVNEGWGQLPAIRPKRESMPEVRQTSAIRHAPPRTSGKTR
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