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 Ga0181403_1003986

Scaffold Ga0181403_1003986


Overview

Basic Information
Taxon OID3300017710 Open in IMG/M
Scaffold IDGa0181403_1003986 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 26 SPOT_SRF_2011-09-28
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3269
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
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)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002586Metagenome546N
F003365Metagenome / Metatranscriptome491Y
F071633Metagenome / Metatranscriptome122N

Sequences

Protein IDFamilyRBSSequence
Ga0181403_10039861F002586AGGAGMIKVKLEANEVELALNIASKRYIGNLRMGKTFSYGYTKGIKSQLTDGILGALGEVAYAKGTNSFYNGSYSDDKQFYSDSDFQNNIEIRTQEKKSYNFLLIRPGEKKGKYILIIKDNNEDFNFSIMGSFIYNDDLPPEKLSNFGYQDRPAAYKIEIKELTNMEEDVRQDKF
Ga0181403_10039863F003365AGGMKTIGKEWDLKKDGGCFTSTHLSPSQLNKSLDIWFNDYVILTAKQRKDLLGNLNMDIGAIVGQAVQDIIVHKLTFEEVMKGKK
Ga0181403_10039867F071633N/ALKVVFLILVIYASDGNLSYQKIPFNYSDQPITCEKMYNESINYVENPDYKEGNGQVWMLTKYKNKNVIAHWCKDSKGNYVR

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