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_10001997

Scaffold Ga0209068_10001997


Overview

Basic Information
Taxon OID3300027894 Open in IMG/M
Scaffold IDGa0209068_10001997 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)10025
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (90.91%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(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 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?
F004589Metagenome / Metatranscriptome432Y
F087285Metagenome / Metatranscriptome110Y

Sequences

Protein IDFamilyRBSSequence
Ga0209068_100019973F004589GGAMKKQYLHLSAYSCDKCRGPVVAGSTAVRENEISKETDIKQVGAICLTCGHRQGITELGVSRQFPPVEWKSAVLA
Ga0209068_100019979F087285GAGGMSLLTRIIKWGAIAALIGSAFSRSVPDIGLLLRFAVVVAAAVVLMQAASMRRYVWMALFLAVVCLFNPVFPVPFSTYMSGIASAFAILLFFFSLELLQPKPRLSIASITDRMPGSESL

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