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 Ga0070744_10029561

Scaffold Ga0070744_10029561


Overview

Basic Information
Taxon OID3300006484 Open in IMG/M
Scaffold IDGa0070744_10029561 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary, USA - metaG S.535
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1622
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005090Metagenome / Metatranscriptome412N
F043933Metagenome / Metatranscriptome155Y
F056617Metagenome / Metatranscriptome137N

Sequences

Protein IDFamilyRBSSequence
Ga0070744_100295611F043933N/AMDIREQCYERATKFAIEWGFTNVSEHIFDIMVSIMCTRDKSSYAGGGFVEAVVANDLYLALSRAD
Ga0070744_100295612F056617N/AMRKSLKRENLLKNSKGQYRYQFNWVSGGFNDIWAKNLTEFKSELKRQFGNSNLDVNYNTLHKATASGAKSWDTAGNMMCW*
Ga0070744_100295613F005090GAGMKTKMKFVWCGVNFELPAECLRTTDYWGKTLENPYISIGRKECPAIAKQFMKAKYPHLLVWGSSETFANGNSATVNVCNPDGSDLDIESKEWNEINSFVRQMCGGRYDGWSESYEYGEPGKSDNGTKLDFGTKYLHVENKAPHGSWPSAIKTLKGLIAGEYVFGVLSLEKAIEKAKTYGYSDSTISKAIACL*
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