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 Ga0307278_10000014

Scaffold Ga0307278_10000014


Overview

Basic Information
Taxon OID3300028878 Open in IMG/M
Scaffold IDGa0307278_10000014 Open in IMG/M
Source Dataset NameSoil microbial communities from the East River watershed near Crested Butte, Colorado, United States - ER_DNA_117
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)105909
Total Scaffold Genes120 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)78 (65.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Soil Microbial Communities From The East River Watershed Near Crested Butte, Colorado, United States

Source Dataset Sampling Location
Location NameUSA: Colorado
CoordinatesLat. (o)38.9206Long. (o)-106.9489Alt. (m)Depth (m)20
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F015614Metagenome / Metatranscriptome253Y
F025499Metagenome / Metatranscriptome201Y
F071216Metagenome / Metatranscriptome122Y

Sequences

Protein IDFamilyRBSSequence
Ga0307278_10000014108F071216AGGAMRRSTRLAVAACAAVVGLAFAGPALAAYSPRLIATSFSNGPGKPTTMLLGHLQEASDDPTAKDTIYAPPGYVVNLTQPVGTKIGEVSATLILRDAGNAQVDVTGEVLADNPALHPSDPCSPGLHQAVWKLNITVAGTPLTVYVYVDSVTAGPEAAFASAKIQLCLAGPIGTPAGAQLLFALFDVNGVFTNPTNTADRIWRATFTPYTPGTPNPNPVGTTEGQALVPGRVSLTLTVKRLKHRVVLLQGRLLVDGSPFRGALVELYTPGKTARAGKATTNRSGRFSIRKKIKKKTRYYAQVVFVADLTGCPAAPLPGVPQGCKTATVSFAVATRTVLARPRR
Ga0307278_1000001461F025499AGGVLEVGRCVPEATVWLAPREPTTIADLVAEAPALFLFFLFAWSST
Ga0307278_1000001497F015614GGAVARRRLFALILALGSLLGIGLYARRGRKQDRVDLYFADGSMVSVEGDSPQAARLIPLARDAIRAARA
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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