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 Ga0209166_10000498

Scaffold Ga0209166_10000498


Overview

Basic Information
Taxon OID3300027857 Open in IMG/M
Scaffold IDGa0209166_10000498 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen01_05102014_R1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)43204
Total Scaffold Genes47 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)40 (85.11%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
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?
F000528Metagenome / Metatranscriptome1047Y
F019161Metagenome231Y
F087482Metagenome110Y
F093554Metagenome / Metatranscriptome106Y

Sequences

Protein IDFamilyRBSSequence
Ga0209166_1000049830F000528AGGMGEWKAQISLRVRQALRAELEEFAGRERRKLGNVAEVILEWGFEQLKAAGSIDRLLKYKIRVSPGQPKRQ
Ga0209166_1000049831F019161GGAGGVEKEMDVLSAKDDRKFEVECGAGKAGQLRVGTDTVCVKVGQRVRMDGAEEIWDSVGVYAKEDESGNLVIRVLVFNPDWDEPLQIASITSRPRDKSCQTSVGCNLDHVNA
Ga0209166_1000049833F093554GGAGGMRVKSFTYQKSVFGTYYKRGLLNLQKMDNHVAKMLNDGWEILTQTAHTGDRRILRPFAKRDTITVSFRKP
Ga0209166_100004984F087482AGTAGGMSPFSAPFFWGTQKRGLLLPKRAAALREGTQCGKGGTGKAEAGKLLDAGISLKQCPEK
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Institute for Fundamental Biomedical Research
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