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 Ga0187222_1007556

Scaffold Ga0187222_1007556


Overview

Basic Information
Taxon OID3300017734 Open in IMG/M
Scaffold IDGa0187222_1007556 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 4 SPOT_SRF_2009-09-24 (version 2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2768
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (90.91%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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?
F020815Metagenome222N
F067202Metagenome126Y
F087896Metagenome / Metatranscriptome110N

Sequences

Protein IDFamilyRBSSequence
Ga0187222_10075563F067202AGGAGMQYKDIVIAAEDLECHTIDTVAEAIKEHILDLGLASSKTLTGFTWRIDVRMRTDNAS
Ga0187222_10075566F020815AGGAGGMRLYMNKQGDWVGTQAEAKKISASMVDVPTDKPNLLKWLNTFTGAIDDAAKEVVQDKPKTRTVTQKAHAWDTIMQCAKNASINDLTMALIVYMDRVQDIADKQKETQQ
Ga0187222_10075568F087896AGGAGMNYKTSQGVELSDDGYTKVTQKKSLGYGLEATLYNNNRLVLTQDATGETLSIPPESTQTLRDIFKSINEET
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