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 Ga0209068_10000214

Scaffold Ga0209068_10000214


Overview

Basic Information
Taxon OID3300027894 Open in IMG/M
Scaffold IDGa0209068_10000214 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities in response to fracking from Pennsylvania, USA - Cold Stream Run_MetaG_CSR_2012 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)34669
Total Scaffold Genes29 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)25 (86.21%)
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 → 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 NamePennsylvania, USA
CoordinatesLat. (o)41.1289Long. (o)-78.4195Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000175Metagenome / Metatranscriptome1756Y
F000300Metagenome / Metatranscriptome1340Y
F011108Metagenome / Metatranscriptome295Y
F082407Metagenome / Metatranscriptome113N

Sequences

Protein IDFamilyRBSSequence
Ga0209068_1000021410F082407GGAGGMKLSVILLTFVFLGVAFAGPAPAGDKKMAMADEKEGRWQGTIVRISKDKSTLSVRGGQSNMASTERTIAYDDSTQWTKQGKKAEMSDFKEGSFVIVVGKPDDKGVFHASQIDLRLPR
Ga0209068_1000021422F011108AGCAGGLAIKPLPQSIPTKLPPAKLYLDDVSEILQILTDSSTDYQASFVAGKSKCDTLDDLKDLKGRTTHFVMDISSPGKHQTLELTTSATRIHIYETGDQLPAWSKYVNVAAIFEKRKLKLKSAVRSAASWILAGLWLLTGALWIFGPHAGKPTSISQLNHLATGVLLAGAVVYYFVSSHSIVYLRYPQRVAAGRWLEDHKPEIIVGFICILTGAITTRIVEKIWK
Ga0209068_1000021429F000175N/AVIVDEGRKRVLLIAAAILAARKLAQYDGGKRVPATMSAISDAIRWAEEILKEIDTRWPTR
Ga0209068_100002148F000300GGAGGMVKKLLTLLFASMLALPLATTLFAQDAPAKEMAAKMDRWEGRVVRSNTEKSSLTVRKVGSTVEKTVVYDSSTQWTSQEHGSKKVNTITAADVKDDDRVICRGTWNKDGTLHATMISKRLT
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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