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 Ga0181405_1000870

Scaffold Ga0181405_1000870


Overview

Basic Information
Taxon OID3300017750 Open in IMG/M
Scaffold IDGa0181405_1000870 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 28 SPOT_SRF_2011-11-29
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10157
Total Scaffold Genes20 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (70.00%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (57.14%)
Associated Families7

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F001942Metagenome / Metatranscriptome613Y
F002221Metagenome581Y
F018081Metagenome237Y
F038657Metagenome / Metatranscriptome165N
F063662Metagenome129N
F093807Metagenome106N
F094536Metagenome106N

Sequences

Protein IDFamilyRBSSequence
Ga0181405_100087011F038657AGGAGMDVLGGMSNTENKQQIYLGFKTRDQKFFANGETEVPIEYLQLDTDTFKSGWGRYTKAEGFQYKWDSKFGVVNPKPADEWRRAFSAWVMPSGAEHAYLWQSFSFAESSAFNNICGLFWADKANNVGKLPVVEYKGSKHIQVGAGNSSELSFGFVKWGDRGFYVPEWYIDPDAPADDDDGFVSPNEGLADKVAEMVAKTELSDSDIPF
Ga0181405_100087013F002221N/AMFGEIMKTYIDESLEGKLKQLREYERETYEKWGARKRIFKIVGVEFEIKFCKAEMLLRDTLYNGHARKKVQMVDMMFRALDSLNIKCEESGYIMIQPSSKCFNFDKKTAIICDTDDEKPVLIKIHKNEPDMMIFSIEELLRCIPKDFMEAKQILSRLDKSVNFKRIDHD
Ga0181405_100087017F094536AGGMRITVQDNLKEIRKQLDKDLNKKDFNKIMARAMNHTGERVVNAERSHLNDKLSNPRPQTVKSVVISQFAKPKNNKLAMTVRVKDFAAKYLHYIYSGENELARRQKYASPTDNLSKKGKFGNIMKLSKKGGLLGKVDRTKDSQRKGSRFQGIPKGEGSNYYGIWERQGKKGREGLKLLVAYTPFIKHRKFIDFFKVGEKVIKNTLHREIDKQFARHMKRKGR
Ga0181405_100087018F018081AGGAGMKHFKEREFSLLNYMCDILYDFYERNDLEHMCALDSLAVGNYKDSKHYIFLQRFGDVWERVEQRSIKR
Ga0181405_10008702F001942N/AMAKTSEDHQSNSRLGALGESLVQTFLLEYADFCYPTQDKHPADLLFEANNAKYTVQVKTRRKSKEGKFTFAVEKQRNMSEIYKNYHCDILAFVFFSQEYKRIIFKPNTTPQNYFTFSEKVITPTLEIDSLQETLDTLSQVPVLNPLK
Ga0181405_10008704F063662AGGAGMEVIFNIVGGGEICLPKREIRGYYKDFLTGETKVQIGEGEYEVRESLTEIKYLMETRDESISGV
Ga0181405_10008708F093807N/AMKQRKTMTQFSDIVELHRLKLNKEKDEWYIHVNNGAGYTEVKQGNTLTTTYHADGRKEVVIDAN
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