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 Ga0272380_10003144

Scaffold Ga0272380_10003144


Overview

Basic Information
Taxon OID3300029959 Open in IMG/M
Scaffold IDGa0272380_10003144 Open in IMG/M
Source Dataset NameEPA Superfund site combined assembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)31516
Total Scaffold Genes56 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)49 (87.50%)
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)35.992Long. (o)-106.0797Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F038519Metagenome165Y
F071903Metagenome121Y
F089758Metagenome108N
F091072Metagenome / Metatranscriptome108Y
F094797Metagenome105N

Sequences

Protein IDFamilyRBSSequence
Ga0272380_1000314433F038519GGAGGMKMSAIDYAAGEDAAGPYTDEVLLQKTLEIIRQIDPNAEIISRECNPWSEQILAGLLPYRIHVDLLDGMPQLPAEISITWPPSEVEGIQIGNLEFREYFVWAESEKAALRKLATLNKAVQSYIPKAVAAEEI
Ga0272380_1000314435F071903GGAGGMNRTEQAAAKRQDELQDALGHLEYFKRTAMALDQAMKAMAKDLQVCKKNELIWEKRIVKMQERA
Ga0272380_1000314438F094797GGAGGVSDSEAIEDLLDPIDSDPETYFATPSEAKALTRDRGFETIWKGGILKGCHLVLKLQVSYNAKGRLLYNGRTYNRDSWTWRPPKFIRLQGREAKEEHNSRNNHPEIYLTTLNGQELKLDACPCGGELVKDRCECLYCRDCGMVYSHF
Ga0272380_1000314439F089758AGGTGGMVLIEEQPDYPGDFGKAFESEDCLQRAKALCETGKLLKDSDGKVHGTPPGLVSIVDLSHEMHRAYGRLGKVLEDAGWFQVPELPGYYFPPELKEDLE
Ga0272380_1000314453F091072N/AMAGTVKDTILPVHKTPEEDIKTLLEGTDIAWAQYKQGQGTRVTSAKELDAFLDSL

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