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 Ga0187221_1087936

Scaffold Ga0187221_1087936


Overview

Basic Information
Taxon OID3300017769 Open in IMG/M
Scaffold IDGa0187221_1087936 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 5 SPOT_SRF_2009-10-22 (version 2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)959
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
Not Available(Source: )

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?
F034754Metagenome174Y
F092880Metagenome107Y
F095400Metagenome105Y

Sequences

Protein IDFamilyRBSSequence
Ga0187221_10879361F095400GGTGGMPRYITDRDKVYLKRKRIASGCSRRAGKDLHPLNDDLIPWMKTNEDIDEYLNLLDILTLM
Ga0187221_10879363F034754GGAGGVKVGDLVDINQKRGSGSYKHTIARGLGVVVRFEELEDLHYENIGSINLGPIVHVLLNTGETEGFAPQSLEVVK
Ga0187221_10879364F092880GGAGGMKAGDLVQYNSRLLLVLEPNPDEYGYNVGWWRCMEVGTNRVRIYSPTQLTVIKTVEQFYL
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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