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 Ga0209340_1005872

Scaffold Ga0209340_1005872


Overview

Basic Information
Taxon OID3300027419 Open in IMG/M
Scaffold IDGa0209340_1005872 Open in IMG/M
Source Dataset NameBioremediated contaminated groundwater from EPA Superfund site, New Mexico - Sample SAE3-23 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5309
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (83.33%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → unclassified Methanosarcinales → Methanosarcinales archaeon(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Engineered → Bioremediation → Tetrachloroethylene And Derivatives → Tetrachloroethylene → Unclassified → Bioremediated Contaminated Groundwater → Bioremediated Contaminated Groundwater Microbial Communities From North Railroad Avenue Plume (Nrap), New Mexico

Source Dataset Sampling Location
Location NameEspanola, New Mexico, United States
CoordinatesLat. (o)35.992Long. (o)-106.0797Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F038519Metagenome165Y
F060548Metagenome132Y

Sequences

Protein IDFamilyRBSSequence
Ga0209340_100587210F060548AGGAGMSTVTNRPKQRRVTDFVDMQVATLIRNHACEELCIEDLVAVALKEMPGFEWKDDKIRHSVNRLEKRGKMASKYVVRSKRLCRVPYLI
Ga0209340_10058726F038519GGAGGMKMYGIATDLGDDWAGPYVDQELLKKTLAIIQKVDPNAEIVSKETDPFSEQVLAGLLPFRIHVDLVDGIPQLPADVQITWPPGEMEGIQFGNLECREYFVWAESEKAALRKLATLNKAAPNYNPKAAAMCEE
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