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 Ga0209856_1000040

Scaffold Ga0209856_1000040


Overview

Basic Information
Taxon OID3300026837 Open in IMG/M
Scaffold IDGa0209856_1000040 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 T2_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)5970
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (6.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(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?
F036694Metagenome169N
F048308Metagenome148N
F067741Metagenome125N

Sequences

Protein IDFamilyRBSSequence
Ga0209856_10000403F036694N/ALSIKTTIDKHFADYYSYYKRICKKYYNGRYLAEDMLHELYFKLLAEKPESIDKYNKDGKLYILGLYRLRDLFRNRTRTLQHIDGNTSSLHEMSNYEIRDFAEEPMELLPIDEINIERIKNCIFDGLLNQDHDIEVFVMAQIEPLYRMEQRTKINRSSLKKAYENARVKLKNQLK
Ga0209856_10000404F067741N/AMKKFKIEFLDSDKCIAFTKFTKWETIEDCRLYAYVVMMNKVKTIQTFNITAI
Ga0209856_10000407F048308AGCAGMMYIELDIDQLNRLQMFNNRLKSHIDNLPKNSTGKRARYFEQVKVMELFIEQNLKKFI
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