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_1000576

Scaffold Ga0181419_1000576


Overview

Basic Information
Taxon OID3300017728 Open in IMG/M
Scaffold IDGa0181419_1000576 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)12866
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)20 (76.92%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F018178Metagenome / Metatranscriptome236Y
F039123Metagenome164N
F070064Metagenome / Metatranscriptome123Y
F082548Metagenome113Y
F088835Metagenome / Metatranscriptome109N

Sequences

Protein IDFamilyRBSSequence
Ga0181419_100057612F070064GGAGGMGRVKSQMFEDFLGPDDELVAKPISQVVDNIRDCDLPLNSLERFQYMQNQMKELMNGIKTNTD
Ga0181419_100057616F039123GGAMDKHDFTALYDQWFALHPFKKRDWVELGKVHYQAFSRESVALMTEALGQLTEEIDNFPSPKQIRAKLNQLSSSKTEGGEVKTNVTSHNETLATRLCEHLYGITYNGKAVKRPSDVPNWVVNVVNEANQRLPEDCPINIRLARVGLAVAQGER
Ga0181419_10005764F088835N/AMMKEIDATEYIIANQLNYLSGRVVQLVTEYGVTKDIQVLEEACRDLATLVQRERFIEERFGADNSD
Ga0181419_10005766F082548GAGMRSPRAVAQDMVKAMDAAMKQVWDAENKKESDEGLKRQVFAHVCNNYARRGGLHGSSQAASRRSGIRE
Ga0181419_10005768F018178GGAGMDRMDLILTRLSERINQWEGASREAIEAETNFKSFEAMQQKAHMDAGSSAAKAQTETRSTGEWASHYRAVQQASLMAEKLKKQIMLGQLMFDAERTKQANQRRIV
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