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_10060904

Scaffold Ga0244777_10060904


Overview

Basic Information
Taxon OID3300024343 Open in IMG/M
Scaffold IDGa0244777_10060904 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)2419
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Archaea → Euryarchaeota → unclassified Euryarchaeota → Euryarchaeota archaeon(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?
F000311Metagenome / Metatranscriptome1326Y
F000980Metagenome / Metatranscriptome814Y
F001125Metagenome / Metatranscriptome769Y
F068816Metagenome / Metatranscriptome124Y

Sequences

Protein IDFamilyRBSSequence
Ga0244777_100609041F000980N/AMTKYQKYTWVCTGDCDALIEYTCKDGYGWPNGVIDLTCPCNSKCTLLSVEDATIPYTDTPLTKEETMETETPAVTIPDTYNANLLVTYKVIRGYSDAEYATDKVASIEWDLHNGRQSQKQANMYSSKIDTVKDIITEAYADSEDQETLRAIAEALSIELIREFEFTASIEVSGTYSYNILENDYDLDLESEVTDALFADSQNGNIEITDQEVCNVSER
Ga0244777_100609042F000311GAGMYFELTAPNKLSFEMAYWDAQIIGLDPHVLSALTFNVGTGSIEKVSKIRDKHNLIESYVSDYEPTGYTGR
Ga0244777_100609045F001125AGGCGGMGDRANFGFKQSDGNTIFLYGHWAGHEMLANLASAVSAAEPRWQDESYATRIAISNLIGDDWAHTTGWGLSVGRILDNEHKIPVINWTAKTFTLYEEDLSTVVFSLSLQDFCTKYSRLVM
Ga0244777_100609046F068816AGGAMPNWVYNTLTIQGPKSEIDFIKDKLNQPFKVLHDSWNMKTNEMEVSESIYSAPVFAFWNIHSPLEDGITMEEYVKQPTRLGISTDSPDWFAKEVAHAKTQTDWYNWNTSKWGTKWDVAVSDGDEYPD
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