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 Ga0208927_1006700

Scaffold Ga0208927_1006700


Overview

Basic Information
Taxon OID3300027220 Open in IMG/M
Scaffold IDGa0208927_1006700 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1546C-02 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2388
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (37.50%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families3

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(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)46.2311Long. (o)-123.8825Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F019321Metagenome / Metatranscriptome230Y
F077309Metagenome117N
F105171Metagenome / Metatranscriptome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0208927_10067001F105171N/AIVKAQYNNPSELTIDNLLLIELEEKNVFGDPKYAVVCSEGVGWEQDEYGCLEIPTNIGAMGLYNGRVFISIDKVKSCQTLFKEDISDYIRTFGDRLDRNCSLWQSKMSVEPATILG
Ga0208927_10067002F077309N/AMTNELVSSKYTFVCDPDECDSLIELTSSDGFGFPSGVTELTCPCGRKTTLLSVEHATIPPITTTKEEKMETTTPAVIVPDTYNANLLHTK
Ga0208927_10067003F019321N/ALHNARQTQKRNAVLQDKIDAVKDIITEAYGDSDDQETLRSIAEALDIALTRTIEWSATIEVSGTMELDLLEDSDTDVEQEIYDNLSVDTNHGNIEVIDQEVTNVREN
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Institute for Fundamental Biomedical Research
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