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 Ga0208050_1001221

Scaffold Ga0208050_1001221


Overview

Basic Information
Taxon OID3300020498 Open in IMG/M
Scaffold IDGa0208050_1001221 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 13JUN2010 deep hole epilimnion (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3677
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa

Source Dataset Sampling Location
Location NameLake Mendota, Madison, Wisconsin, USA
CoordinatesLat. (o)43.099444Long. (o)-89.404444Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003377Metagenome / Metatranscriptome490Y
F059762Metagenome / Metatranscriptome133N
F072826Metagenome / Metatranscriptome121Y

Sequences

Protein IDFamilyRBSSequence
Ga0208050_10012213F003377GGAGGMTDAAKETVYGIIERWGFPTLVALAAGWVLRNDVLLPLVEEHRSFVRQLSETQQGIAEAVREQTRLLYALQPRETK
Ga0208050_10012215F072826N/AMRYFRTANETLYETIRLQLDAAWGHPSADGRTLTCFDPVAVAPKDRLGRVILAVNDEFATWEPAATLLPQLLGSGAVEEITQQTYMAGLPPPYPHATPQDLNVVPAGPNRVRLL
Ga0208050_10012216F059762GGAGMSEVRIRRKSKTFAFTLSTATSVANTLPMLDMAGGHIEVGTMVTAATQINIWASDTTNGPFFQLYDKDGAVVKVTLAASTTDGRAYALPDEVFATQYIKLLSATTNSTGTIGTAVFKG
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