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_1020548

Scaffold Ga0181403_1020548


Overview

Basic Information
Taxon OID3300017710 Open in IMG/M
Scaffold IDGa0181403_1020548 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)1402
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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?
F001655Metagenome / Metatranscriptome656Y
F002858Metagenome / Metatranscriptome525Y
F023856Metagenome / Metatranscriptome208Y

Sequences

Protein IDFamilyRBSSequence
Ga0181403_10205482F023856GGAGGMRCKACNRILEESELTKKDTQGDFLDLCGVCLSAVSSSGVDSETMEYYQYEIFTEDENYDTLY
Ga0181403_10205483F002858AGGAGMFIDEKSIYVVDGGDYSVYCLGYTQARAVTNDIMKADPWGGIPFVLRKDLELSFDDRGNAVMTKSTLDKILELASDELPESQTTSTEGEQ
Ga0181403_10205484F001655GGAGGMKQPENDHVKHFGNDGPIGNDAEIIVYYEERGPAEPVLRIPFWYCKDELGMHEHFEESVRRTAKALAESYTYWPDGYVHVQTIINQEYVNIL
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