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 Ga0184643_1412783

Scaffold Ga0184643_1412783


Overview

Basic Information
Taxon OID3300019255 Open in IMG/M
Scaffold IDGa0184643_1412783 Open in IMG/M
Source Dataset NameMetatranscriptome of groundwater sediment microbial communities from an aquifer in East River, Colorado, USA - PLM0_60 (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2450
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → unclassified Gemmatimonadetes → Gemmatimonadetes bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Sediment → Unclassified → Groundwater Sediment → Soil And Sediment Microbial Communities From The East River, Co, Usa

Source Dataset Sampling Location
Location NameUSA: East River, Colorado
CoordinatesLat. (o)38.9195Long. (o)-106.9496Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005023Metagenome / Metatranscriptome414Y
F030218Metagenome / Metatranscriptome186Y
F036612Metagenome / Metatranscriptome169Y

Sequences

Protein IDFamilyRBSSequence
Ga0184643_14127832F030218AGGMRAALTVALSAFLVTPAAAQWLGMPSWNNPKGGTGVTVSGDFGRPNADAGKGNAFGGRVALGLGTLSLTAGVASWKPDNFDARATSYGGTGAFRLIGGSLLPVAVNLQVGATHSGESASGLDTLGAQTTVSAAVGLSVPLPTPGISIEPYISPGIRYHKASNVPAGISDHQTNVGWVIGANLSFGLLGIHLAYDTEKLDNGVTESVLGIGAHVGLKLPVGM
Ga0184643_14127833F005023GGAGMRHTALTLGLTALLATPAAAQWLGEPMWNNPKAGTGFTIYGDYSQPNSDAGGGSAFGGRLALGAGTFTLTGGVSSWKADGASERITTFGGTAAFRLMGGSLIPVAVNLQLGGGHSLNIKSSITALPVETTLRAAVGLSVPLPTPGVSVAPYVSPGIRYHHYSSATPGARDHETNVGWVIGGNLGFGPIGIHVAYDSEKFDDGTRHGVFGIGANIGLRP
Ga0184643_14127835F036612N/APLHSQWLVWHHDRAARARAGAAGKRLVREGRGAAERTTALVKRLVGGG
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