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 Ga0181387_1007502

Scaffold Ga0181387_1007502


Overview

Basic Information
Taxon OID3300017709 Open in IMG/M
Scaffold IDGa0181387_1007502 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 10 SPOT_SRF_2010-04-27
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2140
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → Viruses(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?
F006892Metagenome362Y
F015659Metagenome253Y
F020445Metagenome / Metatranscriptome224N

Sequences

Protein IDFamilyRBSSequence
Ga0181387_10075023F020445AGGAMSDFDNTAALWKRQPRDTDVAGKKYPQYNGNITVGGKKMNLAAWLNTEKTKEGQPDISLKISEIVAKQEQPF
Ga0181387_10075024F015659AGGAGMIERSLKDAIQQFRKNIDDSDYANLGAKGKYLTVPYRIKFVRDYFGERMSIQTESTELANGSHKFKANIYIDDKLVSVGESKQMKNADKEFEKQQTVSIGRGLSILGFFGDELATAEEMEQFLKPQKKILIKPMAKPKANIKQLADEWIEVLKKTATHSVSVGKFEQNLNPLRQEYLSDLKQINSDLIQQQRIDQEYISLQKTITNRKK
Ga0181387_10075025F006892AGGMSDTGIIIPLKERIRDLETINEAHQKKNGQLRQEIQDKDKLIKELQEKLNNPLNKMREQGEI
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