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 Ga0181411_1000279

Scaffold Ga0181411_1000279


Overview

Basic Information
Taxon OID3300017755 Open in IMG/M
Scaffold IDGa0181411_1000279 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 34 SPOT_SRF_2012-07-09
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)17887
Total Scaffold Genes28 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)23 (82.14%)
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?
F035273Metagenome172Y
F041743Metagenome159Y
F046983Metagenome150Y

Sequences

Protein IDFamilyRBSSequence
Ga0181411_100027921F046983AGGAGMKLPEYMTKESTHKTPGINTMSMIGLSLMWGHMLNLISLWFLPLTIMTLLSGFGNEVTKRDTQ
Ga0181411_100027922F035273GAGGMQNKHSFKVWDKQGQYMTKYTTEEVYKIVVNYPHTNRTLEFIGMDRGSCILQAEVAKEEGDTVMLMESEDTVKLLQKEKIEL
Ga0181411_10002794F041743AGGAGMSLQTIIDNATYLDIDIRKQSGSTLSRSGHYKTADRNVNVYSFKVGMHEGLTYSTNRGVIQDIYTTGATNESNISLNNNSNMNYLTAYQGDISGAELNNISVNGVFGAEIYIDQTSATGSGTLFKKGDFIQPKGNTDTYRYPYQVTSDVAFNSSSSNTTVSVHRPVLSQSGVALTSGGIKVGNDVRWHVKMLTLPEYSIVPHDRVAFSDDFTLIEVIT
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