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 Ga0070734_10000489

Scaffold Ga0070734_10000489


Overview

Basic Information
Taxon OID3300005533 Open in IMG/M
Scaffold IDGa0070734_10000489 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen06_05102014_R1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)82010
Total Scaffold Genes71 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)42 (59.15%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Surface Soil → Surface Soil Microbial Communities From Centralia Pennsylvania, Which Are Recovering From An Underground Coalmine Fire.

Source Dataset Sampling Location
Location NameUSA: Pennsylvania, Centralia
CoordinatesLat. (o)40.7999Long. (o)-76.3402Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000214Metagenome / Metatranscriptome1570Y
F002165Metagenome / Metatranscriptome588Y
F004157Metagenome / Metatranscriptome450Y
F005153Metagenome / Metatranscriptome410Y

Sequences

Protein IDFamilyRBSSequence
Ga0070734_1000048917F005153AGGAGMQLFHIRYRNAQGALMRILNAVSRRGLDFTSVHAEYDGQQHSVTMLLQVTPKQTGQLCREWYAIVDVIHVHAGAAVRGSEAAVWAPHPPAPAGLVERARAAMA*
Ga0070734_1000048951F000214AGGMKNVYEVLRQKEMELTRLEKEVEALRLVAPLLSEEKELGAEVTKTALPTAVNAGPSQPIRIPAPPVVAAAQPVRAAGWDDTAKRWP*
Ga0070734_1000048957F002165GAGMPEKSDNLEQILSQQQQELERMRDALALLGVYPCGACLKFFRRTDAGILFDAGEQVCYGCIRDWWPRRSAGMAEKEREDLEGKLVFWLRDYHHAETVKDPAKLPEQEQQDLQIVANCLECRGTGRSGGDERCRFCDGRGTVWVIVPRKKV*
Ga0070734_1000048962F004157N/AMRLKFAVRAQGVAALAMLLMTAALWGQSTPSGQTSGEGLAIEPAQVPETYPHGTYHVMLRVRGNYVPVLQWSLEKGTLPPGIRLDDKGALQGEAEKAGEFEFVVAARDGGKPQQVVRQAFTIKVVEAITLKWKVPAHVNVNRIEGSVEVTNSTADDIDFTFDVKAVAESGRATEIGYQHFPLKKGTIAMMLPFGETLPPGNYTVYVNGNGEVAARKAIYRQGLKTPSALQVTTGP*
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