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_1000046

Scaffold Ga0224906_1000046


Overview

Basic Information
Taxon OID3300022074 Open in IMG/M
Scaffold IDGa0224906_1000046 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)61734
Total Scaffold Genes119 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)86 (72.27%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

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?
F002512Metagenome / Metatranscriptome553Y
F008558Metagenome / Metatranscriptome331Y
F009636Metagenome / Metatranscriptome315Y
F061904Metagenome / Metatranscriptome131Y
F101346Metagenome / Metatranscriptome102N

Sequences

Protein IDFamilyRBSSequence
Ga0224906_1000046100F002512N/AVLVYRGVVMSTKEFTAQEIADINKDFAVGNAITKWKFMQTPEYARLPDAVRFTVEKECLTHYFNILTDGMPDWKLPISGTIPIRDLNPFRAAVEYFTGTELSVIEQDGTNFKVFAKGYYMMGD
Ga0224906_100004633F009636AGGAMFVENAEGQFVMNFGEAEKSMIQNLEDAVINLTEGASDEKRMAIGYMEYLADCLKRGKLEVKWNIS
Ga0224906_100004634F008558N/AVEYLIGVEMFNNVGHPIEGWAILKCESDNQPEIVSLHQCLGNAEEEKMVLNEMAEGTDTTFVVKNTFGCMIETV
Ga0224906_100004642F101346AGGTGGMTDDGQTSNIVQFPKKYVGIAPKVTNFDAMKLNKELQFADELTDGIMVSMIHNMDENDVEISESKFIQDIAFLSEAIKATIYRDRGFTHPFQNLIELISNVSYDEKEKKHDVHMDMELIRELSEDFTEDDDPDKA
Ga0224906_100004695F061904N/AMGVDEYADRTACIFKNEHGHWEVDFWQADKLIETVVMKTEHGDEVVFHNETYADSAAENYVLGYHR
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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