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 Ga0187218_1009671

Scaffold Ga0187218_1009671


Overview

Basic Information
Taxon OID3300017737 Open in IMG/M
Scaffold IDGa0187218_1009671 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 14 SPOT_SRF_2010-08-11 (version 2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2612
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (77.78%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → unclassified Acidimicrobiia → Acidimicrobiia bacterium(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?
F002318Metagenome / Metatranscriptome571Y
F006528Metagenome / Metatranscriptome371Y
F016274Metagenome248Y

Sequences

Protein IDFamilyRBSSequence
Ga0187218_10096711F006528N/AMKEKDKLSTKIDKEKLAIQTFKNIIEGSRSINGVTWNKIKNLKRKEQIQCLRTLR
Ga0187218_10096712F016274GGAGMPRNKFGLPLIYDFNIALRDKRRIRNLEYMRWNCPKGWKELWSKKLDQLKKNINERKRQTLN
Ga0187218_10096715F002318AGGGGGMKAKDYKSITNILESKNKDKQFFNFMDFEDAEIRKKEVILPLPKKYFNNIVKFIKGEK
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