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 Ga0181405_1050978

Scaffold Ga0181405_1050978


Overview

Basic Information
Taxon OID3300017750 Open in IMG/M
Scaffold IDGa0181405_1050978 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 28 SPOT_SRF_2011-11-29
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1090
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → Viruses → environmental samples → uncultured marine virus(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?
F012575Metagenome279Y
F020156Metagenome / Metatranscriptome225Y
F066795Metagenome126N

Sequences

Protein IDFamilyRBSSequence
Ga0181405_10509781F020156AGGAGGMRDTLKEELTRLVKNESFNLQYANEILELYDDEINDTSEFTAYDKAMQDIDNVKNGEWDL
Ga0181405_10509783F012575N/AMSVTEYIEDVPFVHRIVSDYKEVYIQWHMKDLPHLFTGRASSHEEKIEQYKSVLKELKKLNKTKL
Ga0181405_10509784F066795N/AMNLSKTFPKMSNNDWRKLQLSTDAKNQRDWASRQLHDMENDPDNFTLRDYLKVKAGYNTAVETLKELQ
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