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 Ga0256867_10027940

Scaffold Ga0256867_10027940


Overview

Basic Information
Taxon OID3300026535 Open in IMG/M
Scaffold IDGa0256867_10027940 Open in IMG/M
Source Dataset NameSoil microbial communities from uranium-contaminated site in the Upper Colorado River Basin, Wyoming, United States - RVT150D86 (HiSeq)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2374
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (100.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria → unclassified Candidatus Rokubacteria → Candidatus Rokubacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Soil Microbial Communities From Uranium-Contaminated Sites Across The Upper Colorado River Basin Region

Source Dataset Sampling Location
Location NameUSA: Wyoming
CoordinatesLat. (o)42.9888Long. (o)-108.3994Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F013143Metagenome / Metatranscriptome274Y
F051769Metagenome / Metatranscriptome143Y
F052442Metagenome / Metatranscriptome142Y
F095084Metagenome / Metatranscriptome105N

Sequences

Protein IDFamilyRBSSequence
Ga0256867_100279402F013143AGGAGGMLSRFVLGAIVGGIAVWVWGEDLRRLANSKSRGARLVAADALQSVQSTAEELFDTAKEGVTSTLQAGQDAVRPARSWRDRR
Ga0256867_100279403F095084AGGAGGMSRMPALYCRTCGTFREVEDWRERGGALVIALEPCGHEIRRRAGLEWPIHNVAA
Ga0256867_100279404F051769GGAMNAFAASGRVAAAVVLAMGGLGLALLLLGGRRLAPLPVARCPIHGIAYDAELEVCPDCAKTDAAGGKGGAR
Ga0256867_100279408F052442GGAGGMSRKSKTTEEPRIGRKDLQDPDRDVRGPRKGSVDRDAERSDRDAGAGRPVQLDEEGRSRPTDSDSPRPADDAPVPK
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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