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_1005133

Scaffold Ga0224906_1005133


Overview

Basic Information
Taxon OID3300022074 Open in IMG/M
Scaffold IDGa0224906_1005133 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)5537
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (47.06%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Associated Families6

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?
F001993Metagenome / Metatranscriptome607Y
F004453Metagenome437Y
F004764Metagenome / Metatranscriptome424Y
F018197Metagenome236Y
F023367Metagenome / Metatranscriptome210N
F090509Metagenome108Y

Sequences

Protein IDFamilyRBSSequence
Ga0224906_100513310F004453N/AMGRFSCIMDIYETNFFIMLIDFTEIELETIANAMDDYINYDDEKLNTESLFGGLSVADRVNSIQDKIDKVFNN
Ga0224906_100513312F001993GGAMNAEQLRYKMKNLDELCPNRSVTDDQQFHELYSKLRDLIEDTNYNIDIVDMYTALHCAMEDFDMYE
Ga0224906_100513315F090509N/AMQLLTRREYNLILRSLDNYNLYMNNKEKELSETLQDKLYYNLYNPKDGIARTEAELPDINIDLEKLI
Ga0224906_100513316F018197N/AMNTELPKETNIKEWTNMPPLSDELYNELVKEFNNERHYFFNDSYTIED
Ga0224906_10051335F023367GGAGMKKFIFEEKFISYANVEIYAENEENARLQFQNGNYQYYDISDFTEGHELIGVTEEVCDS
Ga0224906_10051337F004764GGAGMNYTNFGLEKNVEILSAHHVERFTQLRENEQYQDADAVAQEYVCKGEVEDDNYQWLYVNYHFKEAS
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