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 Ga0209867_1000190

Scaffold Ga0209867_1000190


Overview

Basic Information
Taxon OID3300027393 Open in IMG/M
Scaffold IDGa0209867_1000190 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_4-Nov-14 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)14188
Total Scaffold Genes43 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (30.23%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families3

Taxonomy
Not Available(Source: )

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?
F067743Metagenome / Metatranscriptome125N
F073464Metagenome / Metatranscriptome120N
F085616Metagenome111N

Sequences

Protein IDFamilyRBSSequence
Ga0209867_100019019F073464N/AMNTKNWVIKIEIAIDENSHPRKFIPDAIADCLNFEEGEDIIDYDFVCLD
Ga0209867_100019039F067743N/AMTLTAVPIEIAAELSQKCLDYITELVEENYVLDDILQFITEYNSDDFINYYVDYVEQGEKVGYDVVDAFLQENDISDVTRVEDAFIGNYDSEAQFAEDYHNDIMDVPSTLVIDWKETFYQSLSYDYVKGHMKGYVFQSNF
Ga0209867_100019040F085616N/AMSFTKTQEQKQERWARIAELEVSKRVMTSAQSISARNKQKKATLLADKAENLLNSLTQSVRVSKAPMGTNPLTVEDKAPVPDANTFLPNRKKIDQLAVKANQIIDDILKG
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