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 Ga0181396_1001038

Scaffold Ga0181396_1001038


Overview

Basic Information
Taxon OID3300017729 Open in IMG/M
Scaffold IDGa0181396_1001038 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 19 SPOT_SRF_2011-01-11
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6142
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (68.75%)
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?
F001839Metagenome628Y
F011253Metagenome293Y
F026438Metagenome198N

Sequences

Protein IDFamilyRBSSequence
Ga0181396_100103813F026438N/AMANHINVIGDSYTKFGLKHTSKSTACLPHTIRFFKKHILTPKENSEISNASFIGGTLIHMIVQESLTKKLSLDDVIKSELIQTKIDNYEPNDEKDKKKFEFIVKAAKETAQNHLDNIAELDNQDWQDEIEQVLWTPPVNTYWLMYIDLVGQDLFGDLKNKFGTVSLTKTKGWTYTNVKCPDRPFYSDVQQISLYQKSLGLKPFLSYASNCDRRLFTQENCEDLKQESLDKALKELMIYEIAWEKKLELADGDLDKLAWLCCPDFSDIKKKSFWWTGVAQEQIDRLLKHYE
Ga0181396_10010386F011253N/ALAGGVPKLKDRSIDIKNIVKMIAKSKSFPYSNAVKKIKKDRKGYYQQKDIKLKSKSLSTDRFQQYLKTIQEEDDTN
Ga0181396_10010387F001839AGGALKYFEKIDKDLLNNRALNSHEKLIYIICKSFENAPNKCRISHKYLMIRTGIKTKATLIRYLDRLTLFGLLARKQIDNGTCHYVFDKPTMQEYILHNTNKRKKISLSKNRHNRNLNAALSSPNVINMGKVIK
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