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 Ga0181388_1001997

Scaffold Ga0181388_1001997


Overview

Basic Information
Taxon OID3300017724 Open in IMG/M
Scaffold IDGa0181388_1001997 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 11 SPOT_SRF_2010-05-17
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6072
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (15.38%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → Viruses(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?
F009889Metagenome / Metatranscriptome311Y
F036974Metagenome169N
F042076Metagenome159N

Sequences

Protein IDFamilyRBSSequence
Ga0181388_10019971F009889N/ALIKLVQVLTYKKNMRICSLICVLTLFGCSSNYHYQKALKKGLKPLISSDTIRIATIDSVPVVIHDTIIYEKYFSSKDTIVHYENVFVPKTRLETRIEYKIHRDTIRYETRVEVQKAKASKQPNYLLWVFLIVLVLAAMQLIKKFL
Ga0181388_10019975F042076GGAMRGEIDIFNIEDDIVEFGIHDTSFRVCIEQETYWIEEAVSFNSFTDEIQYEEHQETTTFVRMDTLECEGILYYSKQDICSELERILNEDK
Ga0181388_10019976F036974N/AMIEPFKLEFWDNFNDSLYFDYLLKREEMLNTYKITYKTYKGSDTSAPVSYAIKYIKAYNRHDAINAFNLWKGLIIKVEICD
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