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 Ga0209580_10000034

Scaffold Ga0209580_10000034


Overview

Basic Information
Taxon OID3300027842 Open in IMG/M
Scaffold IDGa0209580_10000034 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen04_05102014_R1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)161349
Total Scaffold Genes157 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)129 (82.17%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Associated Families6

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?
F000228Metagenome / Metatranscriptome1519Y
F027455Metagenome / Metatranscriptome194Y
F043255Metagenome156Y
F050243Metagenome / Metatranscriptome145Y
F062620Metagenome / Metatranscriptome130Y
F085928Metagenome / Metatranscriptome111Y

Sequences

Protein IDFamilyRBSSequence
Ga0209580_10000034124F027455GGAGGMIKFVCDSCGRTKRTGQEWLLGLAAESIGVTSARREINMLSSWAEPQAVHPMAVHFCSERCKERYVNKLFNRSAVA
Ga0209580_10000034135F062620AGCAGGVAGEPKTEMEKTLRAMLLVSLESMKQKQQIAILDKSGFGQSEIAEVVGSTPKAVSVRLAEIRKEARKNQKK
Ga0209580_10000034136F050243AGGAGMAKKVEATVLSTLQDLLIFQMASKGVPQGQIRDAVGLKMDRVNRIAKLATKSSKAEE
Ga0209580_10000034138F085928GGAGMPVDGTERLIELLEKALMIQLHSMKVAQGDIAKMLNKSKTDVNNFLKPVSKGK
Ga0209580_10000034150F043255GGGGGMTKKRNPRNPKFAWVGSTPITPISDEQSREIDRRIHRRKDRLRKRYPEIHGRIVDYVSHSIEDGVLFVNIVFKDKTNFSLRFASEIFIVGADFGDTRTGDLDIVREYMKPILR
Ga0209580_1000003455F000228N/AMPPPSDKPPGRLKMFLVPCSCGATFAVTADFARKGSSLSRYIICPKCGKRHDPKNRLLEMGYQEEGYWKVEQC
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
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