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 Ga0208320_1000041

Scaffold Ga0208320_1000041


Overview

Basic Information
Taxon OID3300027362 Open in IMG/M
Scaffold IDGa0208320_1000041 Open in IMG/M
Source Dataset NameSoil microbial communities from meander-bound floodplain in the East River, Colorado, USA - East River MetaG ERMZT299 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)19734
Total Scaffold Genes37 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)23 (62.16%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Sediment → Unclassified → Unclassified → Soil → Soil And Sediment Microbial Communities From The East River, Co, Usa

Source Dataset Sampling Location
Location NameUSA: East River, Colorado
CoordinatesLat. (o)38.8895Long. (o)-106.9086Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F030919Metagenome / Metatranscriptome184Y
F081905Metagenome114Y
F094821Metagenome105Y

Sequences

Protein IDFamilyRBSSequence
Ga0208320_100004122F030919AGGAMAAPFPPQGNQTQHTERPLKVYAEQYLEGQPLPVGVVTDYGDPPLFVDGLPRVPLSTGWVVVALTDWVISNRYRGTPIEVISHEEMTERFGTQGDAIT
Ga0208320_100004128F094821GGCGGVFEKIALHGGAASIVWGYRPAVELRTWRIVKSEGKWILSGTIARVDKFQARQAPLLFTAPRPGGFWAWPIETIAIGETSVRAKLGPPVQ
Ga0208320_100004129F081905AGGGGGMAIKTGRYGQVLWDPAATTPVALISLNAWTGDFSIEYEDVTCFLDVNHVYIPGLAKREGTLAGYWDSSNIEIFEAADQETPGMLKLFPNNTETTFFWSGLAYMDASIDCSLAAPKVTGSWRAAGPFPLSGGV

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