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 Ga0224906_1000053

Scaffold Ga0224906_1000053


Overview

Basic Information
Taxon OID3300022074 Open in IMG/M
Scaffold IDGa0224906_1000053 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 56 SPOT_SRF_2014-09-10 (v2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)58298
Total Scaffold Genes91 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)44 (48.35%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F000681Metagenome / Metatranscriptome939Y
F001377Metagenome / Metatranscriptome711Y
F002093Metagenome / Metatranscriptome594Y
F010001Metagenome / Metatranscriptome310Y

Sequences

Protein IDFamilyRBSSequence
Ga0224906_100005329F010001GAGMQDKASKDNIKLLKAQLGNLEVQVAEYQQIVKELSDKLSLYENNYGAVFKPSRSISNQK
Ga0224906_10000534F000681N/AMNKGVEKMYKRDDYYYSVISTEDLYKELNENYTGETDLVQSLMSRAISNGWVETRHELGVANEELWSLSDWPEGEGFGSSDHFEYDRRIQESIAFERKFIQAETELVTINRLEESPKNETVRAYMKMNDKLKEGMVA
Ga0224906_100005340F002093AGGAGGMAYDGTIPAGGPGNFVSPNSAIEHEGVRVDFITVDYISDVSGEITHSTASANTAGLKLAIEAIQNQGVNILGTGALGNSNTEQTYMVRADSLDTISSTTTVAAIQAAIRALNALTPDKVTATISSATAGDRDMSDTQVA
Ga0224906_100005386F001377N/AMISNWIFWAIPHNYVRRYLITFWVVMFFLPGYILGLHFTKLGFIINWLWFDLVFYGWFKAKQTLGDDE
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