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 Ga0181419_1001888

Scaffold Ga0181419_1001888


Overview

Basic Information
Taxon OID3300017728 Open in IMG/M
Scaffold IDGa0181419_1001888 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 42 SPOT_SRF_2013-04-24
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6961
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (5.56%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
Not Available(Source: )

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?
F005706Metagenome / Metatranscriptome392N
F038672Metagenome165N
F081203Metagenome / Metatranscriptome114N

Sequences

Protein IDFamilyRBSSequence
Ga0181419_100188812F005706N/AMKESKVLKALGLTSSDIQNLLMSGVSMPEIAKRYKISYLSLVQAYKIQKKDFKYIDFAQPKKEVEDIQKVSFTFDKLYTEESLNENEILAYYKYEQKHKAYYE
Ga0181419_100188815F038672N/AMDELDVMLRKNKLDIMIIKASADIEKNNNPAKKEGLEVLVDILSLIHDLQHEIRENYRSIAKLKYQNAVAYKENAILKTDFSTYKHNLKQTELKSTENG
Ga0181419_10018886F081203GGAGGMDKYQFYYRQKQEWDYWQANERHNFLSDRLLGFLSQARWNRDILKTLKLNDNDLEIHQNRFSQMITQVVKISLELKDLSINYNPKRIKNIIIILTKIKNYNNE
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