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 Ga0181379_1006027

Scaffold Ga0181379_1006027


Overview

Basic Information
Taxon OID3300017783 Open in IMG/M
Scaffold IDGa0181379_1006027 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 2 SPOT_SRF_2009-07-10
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5221
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (70.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

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?
F004952Metagenome417Y
F005843Metagenome / Metatranscriptome388Y
F038193Metagenome166Y

Sequences

Protein IDFamilyRBSSequence
Ga0181379_10060271F005843N/AMMALALRLNMKVGLKMTLAEPVFMAFVIFSSPDECKAFAKYYDLARIFEPQCVEMGGEADYRRPWPDVRPQPRPTQESKNG
Ga0181379_10060275F004952GGAGMNLTHTHQFLITHITDSGTGFGVRTDNGESVHISPRLLEQAHANLDDICTGIIVQNAVEEQRERTPWVAAYVQERRAARDVLGLATDVPAEAVQAPTEEPKQVDWADVQRKILSMLQSDDVTYCETADIADVVDVDTRKLSQHLENMHSRGEICRAHVNQRANQQRASLVLWSINADVYK
Ga0181379_10060277F038193N/AMQYVARVANSINVGRAGEILVAAELEQRGIRCHRVDMKDDDLWVKSASGELLTMQVKATLEPRKERYREAHYVFTRANGDAHIFAYVALDIRLFILRAAPTGKTVRIKPAEFTPQAMADSIAAHLY
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