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 Ga0181404_1011500

Scaffold Ga0181404_1011500


Overview

Basic Information
Taxon OID3300017717 Open in IMG/M
Scaffold IDGa0181404_1011500 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 27 SPOT_SRF_2011-10-25
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2328
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
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?
F005105Metagenome / Metatranscriptome412Y
F007826Metagenome344Y
F030601Metagenome185Y

Sequences

Protein IDFamilyRBSSequence
Ga0181404_10115003F030601GAGMPGIKDGATEKKELDTNVIELIKRILRLKTIHRDRGTYSATGDSLDLSDDGQPSDDSRRPLGENTVRGGVSQDDKPKQPIFVNEDPEYCKHLAKFFKGEK
Ga0181404_10115004F007826AGGAGGMNKETAFTFKLLNLIKKCREKGKFQLAIKLIDKYKIDREKLAEDYYD
Ga0181404_10115007F005105N/AMVRKICDRCMGNGYRRIWKDQTESEKITIQCAKCESAGEIDEEPNYDSNGFGTNKLQ
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