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 Ga0102889_1022118

Scaffold Ga0102889_1022118


Overview

Basic Information
Taxon OID3300008964 Open in IMG/M
Scaffold IDGa0102889_1022118 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1551A-02
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2011
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 → 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)46.187Long. (o)-123.8837Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F015599Metagenome / Metatranscriptome253Y
F018537Metagenome234Y
F018924Metagenome232N

Sequences

Protein IDFamilyRBSSequence
Ga0102889_10221181F018537N/AMKNEEQVLEVKKVLEQIFGWVTLRGRHSDRKSVVKRWGRSRQNDVPWRVAQYIDIYLHGENPNRQRISQKKGMERKNLQLNDTNVMIARTLGSMGYSLADGVKHTKQSRPSSPLMAIRELQYQTQMKDPKFQRKEMKRKYMNKSYKLQKGDWGYIAQELLDYTYLCNRVSFSQLKSHYDIVMRGNATTQNGGSFIHHLHSLIDMRNAIGRRCGRYLYKDTDGKYKVSNI*
Ga0102889_10221182F018924N/AMTNSEKAIAQLFGVLCSIVKSEHTPQMTKQATINTFQKLIGEEGSPFLDDELIKLSTAMDMEMQSIVRQLNGDKMLNEVLSNNINLN*
Ga0102889_10221184F015599GGTGGMKLTIKNYEKLFRKEWDDKNYIEDIDENRNEYRINVWREHMRHFIILNRRPVENGYYTIGKWSNEAHCVRYPYWIKHDDIVNIDSLMDKLKLMTDDWTPKLL*
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