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 Ga0102813_1041722

Scaffold Ga0102813_1041722


Overview

Basic Information
Taxon OID3300009003 Open in IMG/M
Scaffold IDGa0102813_1041722 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - Flood tide ETM metaG S.725
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1592
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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)46.2Long. (o)-123.94Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000714Metagenome / Metatranscriptome924Y
F001043Metagenome / Metatranscriptome794Y
F039125Metagenome / Metatranscriptome164Y

Sequences

Protein IDFamilyRBSSequence
Ga0102813_10417222F000714N/AVEDATIPYTDTPLTKEETMETETPAVTIPDTYNANLLVTYKVIRGYSDAEYATDKVASIEWDLHNGRQSQKQANMYSSKIDTVKDIITEAYADSEDQETLRAIAEALSIELIKEVQFTASVEVSGTYSFNILENDYDMDLESEVTDALYADSNNGNITIDDTEVCNVREC*
Ga0102813_10417224F001043AGGAGMSDYKDGFQDGYKFAREELMEKLSEIDIADIESWILDRLSEMIEGGNL*
Ga0102813_10417226F039125GGCGGMGNRANFGFRDSKGETLYLYGHWAGSEMLHHLATAVAKAEPRWTDEAYATRIC
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