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 Ga0244777_10006953

Scaffold Ga0244777_10006953


Overview

Basic Information
Taxon OID3300024343 Open in IMG/M
Scaffold IDGa0244777_10006953 Open in IMG/M
Source Dataset NameCombined assembly of estuarine microbial communities from Columbia River, Washington, USA >3um size fraction
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7290
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (11.76%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (16.67%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Nostocales → Aphanizomenonaceae → Aphanizomenon → Aphanizomenon flos-aquae → Aphanizomenon flos-aquae WA102(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000957Metagenome / Metatranscriptome821Y
F001923Metagenome / Metatranscriptome617Y
F003583Metagenome / Metatranscriptome478Y
F014261Metagenome264Y
F042864Metagenome157Y
F053888Metagenome140Y

Sequences

Protein IDFamilyRBSSequence
Ga0244777_1000695310F003583N/AMAVVLLTGFAGLSALSSAYIAGYVLETLQSRDALVMIVTDAGIKSDSQRVEQGLSSATLALKSVRDLGWALAVGCLGVGVAVFLRSRRQTA
Ga0244777_1000695311F001923N/AVSASPINPEEIPTEVKDGVVAAILGGLSMCARLLLSTTPVSPGWVVRRVLAAGITSCVAGYAIAEHIQSPGLRMGAIGAIGYCAPEALDYLLKAFKARAEKEVGAIAGKKTNGKAKAPSKGKRKR
Ga0244777_100069532F000957AGGAGGMSAFRHLDGMVALLSEIYEINERILTGDICSNKTAIASGRMKKLLHHYHEALHEDGAVKVSLQAYAAAGGWVGIQYSYELDGFEVAGSQVPRRV
Ga0244777_100069535F053888N/AMNQDPIDLITVGDRPIRLSRPVLPHAARRLAGILPQLNALNTAGKSQADAATALGVSIGAVRTWIALTGISWSNLNKRGPYAKRTK
Ga0244777_100069537F042864N/AMSTKTKKAELVSDKAMNELLKRRVVDFRQAASVKDKDGYVKGIGSYALYGIDHARGQLVVLASEPTAGDFNKYVTAKAKADVCALFDQVVEYRDAGTAKSPKVTILCWNLA
Ga0244777_100069538F014261N/AMKSLIALSFLIIFGWLAVVTFCGPELARAINGPEPVKAKVVRRAR
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