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 Ga0181402_1041395

Scaffold Ga0181402_1041395


Overview

Basic Information
Taxon OID3300017743 Open in IMG/M
Scaffold IDGa0181402_1041395 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 25 SPOT_SRF_2011-08-17
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1259
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → Viruses → unclassified viruses → unclassified DNA viruses → unclassified dsDNA viruses → Prokaryotic dsDNA virus sp.(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?
F002399Metagenome / Metatranscriptome563Y
F035770Metagenome171Y
F087206Metagenome110N

Sequences

Protein IDFamilyRBSSequence
Ga0181402_10413952F087206AGGMSNHYNEQEMENIQNYVLEQDRKGLLEDEIGYISFAYGLHPDDDRDEILEFITETILYEKNVGGLI
Ga0181402_10413953F035770AGGAGMKPYKPISFGMAEFAYARHLRDELGHTGEIIYPNKDASKQDREGVWLLLTITGERLGTVSPNGTVRTT
Ga0181402_10413956F002399AGGTGGMTIKTKTHKSVIGQLRKKYGLKDNTPIHKVGQIMTPKDWKAFSTALTFPNGKPTRGK
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