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 Ga0073913_10003174

Scaffold Ga0073913_10003174


Overview

Basic Information
Taxon OID3300005940 Open in IMG/M
Scaffold IDGa0073913_10003174 Open in IMG/M
Source Dataset NameGroundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_25-Nov-14
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2175
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Sand → Unclassified → Sand → Groundwater Microbial Communities From The Columbia River, Washington, Usa

Source Dataset Sampling Location
Location NameUSA: Columbia River, Washington
CoordinatesLat. (o)46.372Long. (o)-119.272Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001279Metagenome732Y
F002302Metagenome573Y
F007749Metagenome / Metatranscriptome345Y

Sequences

Protein IDFamilyRBSSequence
Ga0073913_100031741F001279GAGGMPASTTIEIVGVKQTINSLRKIDPQLQKDFKADATAIAQPAIQAGKAVYKELPLSGMRYNWVQRDRKLFPFATAKAISGVRMRFDTRRNAVGVILIEQKDPAAAIFETAGRANSNKLGNALGFVSAGRTRLIGPAVYKARRGIEAEMTKMIAKTMRVVQSEI*
Ga0073913_100031744F002302GGTGGVPAPYTDLFNEALDDLSATLTAVTGLRVVTDPTKLVPNCVFITAPSFTTIAGNGNIVRMDYPIKVVGSGPAGLPVLREILQITALVLGSSVIAMSGRPGTLDIGGQEYPCYDVAVGLQAQSA*
Ga0073913_100031745F007749N/AANLVTYLGVSITNPSDDYTLATQAVSAGNQFCSRRRAEAGYNDSLSTSPSGDVTLGCLMYCAALWRSRGSLENVFASFDNMGTAPQQSMTPIVKQLLGIDRPAVA*
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Institute for Fundamental Biomedical Research
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