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 Ga0209889_1000045

Scaffold Ga0209889_1000045


Overview

Basic Information
Taxon OID3300027952 Open in IMG/M
Scaffold IDGa0209889_1000045 Open in IMG/M
Source Dataset NameGroundwater microbial communities from the Columbia River, Washington, USA - GW-RW N1_0_10 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)21795
Total Scaffold Genes20 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (80.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Sand → Unclassified → Groundwater 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?
F011005Metagenome / Metatranscriptome296Y
F041176Metagenome / Metatranscriptome160N

Sequences

Protein IDFamilyRBSSequence
Ga0209889_100004510F011005AGGAGGVRRDVLALSVALVLGGSGVATAAVFAGTGSPSGGPPGRSDKAEATEKDAGVHGGPIERFHHAGSCDLAAVGSLPGNWTHGDYVSAVAAGGEDAEIREAAWSDCGKPMVAVGHGGGPPEHALEHMAAGQAHAGKGDDSGSDAVGS
Ga0209889_10000458F041176N/AMTYEIINGWIVGKLPGPNGDLIPVKHFPQGPYERRQRNNPLLCLHTTETDGYVEDLRFPTEFQVGEDVIGQHRPLWARGAAVDEHDHDLLQIEIVGFSKLDRWLPKPSSLPPLVALMALLHRRGFVVTALRRPTRWPVPLDRLPAAVDTYYRRLEVWDHAFVYGHVEIPGDEHWDPGSLDHPVLFSMVRDVLAPKEVDGEMLSDNQLEGIQFANGMRRYLDSPDNEPAEPGPHRQGFRFAERITTHIEGEPPPAAFEPSRSPTEGMQLSPDEKHPGREEEEETQSRGGSEGSSD
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