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 Ga0209864_1000829

Scaffold Ga0209864_1000829


Overview

Basic Information
Taxon OID3300027547 Open in IMG/M
Scaffold IDGa0209864_1000829 Open in IMG/M
Source Dataset NameGroundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_25-Nov-14 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4096
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (55.56%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Sand → Unclassified → Sand → Groundwater Microbial Communities From The Columbia River, Washington, Usa

Source Dataset Sampling Location
Location NameUSA: Columbia River, Washington
CoordinatesLat. (o)46.372Long. (o)-119.272Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003962Metagenome / Metatranscriptome459Y
F082352Metagenome113N
F085342Metagenome111Y

Sequences

Protein IDFamilyRBSSequence
Ga0209864_10008291F085342N/AMDESGAPPGAIEKAKNGRDIFTDKIADEIVAACGSGFTLEKAGALVGVNPSTIRTWAQRKPDFARRVETSRKKHELSLLRDIELAGAKSWQAKAWMAERIYNHAQPSARLQVTQDHTHNLGGNLAQLLAGIRGRKQEKKAEVIDMPALTKPQTQLHSIPTTSTDMSQKIYCIKSETLQPQTLTPKTLKVRHKRMKLRKPRAESLAKYPPTTTPPLPP
Ga0209864_10008292F082352N/AMNKIKTPDDCGDNKVIFRYDDPTFFVGYYAGGTWNGWDCVRVDKATFDQLKKICEEQGGDVEDYENAEADEFGLYSLDGHCSQVCGFTHKGIFVTNPFQSDCGRFEADPEKDYGFNHEELIEIFGENYKVLKS
Ga0209864_10008298F003962AGGVGLPLDREQLKLAHKFIGLLQAENAQLHSVLRLLGQLVDDMNANCSYEVFEAQWNGLTERVKGLSGFFESHQKALQSLQDACPDEFDTDEVDNES
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