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 Ga0181398_1005590

Scaffold Ga0181398_1005590


Overview

Basic Information
Taxon OID3300017725 Open in IMG/M
Scaffold IDGa0181398_1005590 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 21 SPOT_SRF_2011-04-29
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3314
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Rhodospirillaceae → unclassified Rhodospirillaceae → Rhodospirillaceae bacterium(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?
F023243Metagenome211N
F030882Metagenome184N
F081764Metagenome114N

Sequences

Protein IDFamilyRBSSequence
Ga0181398_10055902F030882GGAMDFKGLIDHYETLPKSELIEKLVFKNARLLTQDNVIEKLEDEKKRLEEINQNHQKLNGELMQEIKQLKQGE
Ga0181398_10055903F081764AGAAGMEKRIRKVADCYTKFGLQHTSKSTACLKHSDRFFKKILLPKETKDLNNASFQGGTLVHDVVQEVVTKKLNLDEVISSDKIQKDIDSYLAFNDKDKYKFKFIVKNLKLTAQNHLDNIAELETQNFEKELEYTAWLPNVETYWLMYLDLVGTKNFGDLKNCFGSAKLSPLKNPVKTTKKKTDKPVIDNRIDDWVYSNVKVPTRPYFSDVMQISLYKNSCPLPPFLSYASNCDRKLFTENNCDELKQENLDQAIKILQVYEKAWQNKLEIADGDIEKLAWLCVPDVSDIKKNTFMWENVPDKYKQKFLDVYGL
Ga0181398_10055906F023243AGGAMNPEIELDLYEITTAAQTGLLRVTESIKLNQDWSYDYKGTLEDKISKSISGAMAEQSLCKYLDIPYEFHTNVGSVPDVKYKEYNIQVRSQTPKRNNKNSLIIRPKGVKPNEIYVFILSEAPKFIIKGFINSSAVIGKEN
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