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 Ga0209698_10013533

Scaffold Ga0209698_10013533


Overview

Basic Information
Taxon OID3300027911 Open in IMG/M
Scaffold IDGa0209698_10013533 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities from Pennsylvania, USA - Little Laurel Run_MetaG_LLR_2012 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8040
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (83.33%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Sediment → Unclassified → Unclassified → Watersheds → Freshwater And Sediment Microbial Communities From Various Areas In North America, Analyzing Microbe Dynamics In Response To Fracking

Source Dataset Sampling Location
Location NameUSA: Pennsylvania, Clearfield County
CoordinatesLat. (o)41.170727Long. (o)-78.4726Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000092Metagenome / Metatranscriptome2385Y
F046497Metagenome / Metatranscriptome151Y

Sequences

Protein IDFamilyRBSSequence
Ga0209698_100135334F046497GGAGGVRIGKPHFTGKFASAVLSLLSLLSASVARAQGPAPETAPPLFPGGGLISYNSIFTTRGLMPTSSGGIPVTAFPTFSHEADFNFTWGFYRNFDLAVLVPVITNHFDSENAPVVGGTGVGDAMLLVKCRFYRRDSERGTTQASVTFGPKIPTGRTDLRDTSGKRLPAGLQPGSGSTDLFLVANWTYTGLFKVKRLVADEDFHFLIRSQGTQVTRLGTDIESRFWLSYRPYESKNVAREWFIGPVLTWLHSHDDRIKGVTQGGSGGDVLLAGIATYVGVRPGMHVWLGMDWDVAHSTGVMFMPVRRHVSFGITKQFRMHR
Ga0209698_100135336F000092GAGVKQHLGRQSGVQTVEVSLLDGKVEVTPKEDGQIDPAQLLKATYDSGVTAAEMDMTARGKIVKESSGGLALQVAPNRSFVLTPNELSKGLEALADTPTIVTVRGQLYKKPGGKKKANASAPLKLLILEVQKKE
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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