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 Ga0181385_1075078

Scaffold Ga0181385_1075078


Overview

Basic Information
Taxon OID3300017764 Open in IMG/M
Scaffold IDGa0181385_1075078 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 8 SPOT_SRF_2010-02-11
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1042
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → Viruses → unclassified viruses → Circular genetic element sp.(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?
F007750Metagenome345Y
F095250Metagenome / Metatranscriptome105N

Sequences

Protein IDFamilyRBSSequence
Ga0181385_10750781F095250AGGAGMPLVQKKLTLARGATTDNILANTNYEFVDGNVRLRVASAVDTAGTSATADTFLNVS
Ga0181385_10750782F007750AGGAGGLAFLGDFGKFLGLGSSEQVLGDVGATVGGFFGGPGGAVAGKELGKATGRATSNLAGDDGISPLSTADQALEQSAVPVSSLGNRPQETSTMTGTTGMVTQAGFGSLAPFVTGVGRLLGSKTGQIATGVGTAVGLGSSQFMGMDRREKPVLTQSRRNKAKVRQLVNFMGIEGTANFLSQSIGQNVSPNDVVALLLRTFRNDGAYITKAQVRNLRRTTNRFKSLEKQVKEATSMARTTRRAPVRRASSTTLIKN
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