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 Ga0074195_1001963

Scaffold Ga0074195_1001963


Overview

Basic Information
Taxon OID3300005326 Open in IMG/M
Scaffold IDGa0074195_1001963 Open in IMG/M
Source Dataset NameBioremediated contaminated groundwater from EPA Superfund site, New Mexico - Sample HSE6-23
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)25359
Total Scaffold Genes38 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)28 (73.68%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Archaea(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)35.9918Long. (o)-106.0796Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F038519Metagenome165Y
F060548Metagenome132Y
F071903Metagenome121Y
F089758Metagenome108N
F091072Metagenome / Metatranscriptome108Y

Sequences

Protein IDFamilyRBSSequence
Ga0074195_100196313F091072N/AMAGTVKDTILPVHKTPEEDIKTLLEGTDIAWAQYKQGQGTRVTSAKELDAFLDSL*
Ga0074195_100196329F089758AGGTGGMVLIEEQPDYPGDFGKAFESEDCLQRAKALCETGKLLKDSDGKVHGTPPGLVSIVDLSHEMHRAYGRLGKVLEDAGWFQVPELPGYYFPPELKEDLE*
Ga0074195_100196332F060548AGGAGMKNPMMVPNRPKQHRVTDFVDMQAAMLVRNHAGEELCIEDLVDAAKRDMPNFEWNNDKIRHSVDRLEKRGKIASKYVIRRKRLCRVPYPI*
Ga0074195_100196333F071903AGGAGGMNRTEEAAAKCQAELQEALGHLEYFKRTALALDQAMKVMEKDLQVCKKNEQIWVKRIEKLQEKA*
Ga0074195_100196335F038519GGAMRMFAIEYGGEDAEGPYTDEDLLHKTLTIIRQIEPNAEIIGRECNPWSEQILAGLQPFRIHVDLVDGMPQLPAEISITWPPSEVEGIQIGNLEFREYFVWAESEKAALRKLATLNKAVQSNSPKAAAAQEL*
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