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 Ga0187221_1144668

Scaffold Ga0187221_1144668


Overview

Basic Information
Taxon OID3300017769 Open in IMG/M
Scaffold IDGa0187221_1144668 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 5 SPOT_SRF_2009-10-22 (version 2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)706
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → unclassified Betaproteobacteria → Betaproteobacteria bacterium TMED41(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Strait → Unclassified → Seawater → Marine Viral Communities From The Oligotrophic San Pedro Time Series (Spot) Site, San Pedro Channel, Ca, Usa

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)33.55Long. (o)-118.4Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F030049Metagenome / Metatranscriptome186Y
F088823Metagenome109Y
F099266Metagenome / Metatranscriptome103Y

Sequences

Protein IDFamilyRBSSequence
Ga0187221_11446681F030049N/AIQNDMCKAGSWIDSMPIGTIVETVPQESIQKLQANVLPEYRRLAANLIDRFISEFEAQGGRRIEITEKFESMYKWRQ
Ga0187221_11446682F088823N/AMATIKEKNLGFFYSKTPEHDLDATFNFSAEYRQDVSGQNGTDGVNLAMNYVKKFNGACGFFIWKNPKCYNADGSKKDIKAMYANQGKEVDNATKHGLVYDLETDMFVPIKK
Ga0187221_11446683F099266N/AMQKEIHKEDYFGTLMCILVDESRRIMSTFNPTKQLHKIQNDMCKAGSWI
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