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 Ga0102876_1039700

Scaffold Ga0102876_1039700


Overview

Basic Information
Taxon OID3300007642 Open in IMG/M
Scaffold IDGa0102876_1039700 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1548A-3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1325
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

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)46.2319Long. (o)-123.8812Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F022886Metagenome / Metatranscriptome212N
F030763Metagenome / Metatranscriptome184N
F036239Metagenome / Metatranscriptome170Y
F053288Metagenome141N

Sequences

Protein IDFamilyRBSSequence
Ga0102876_10397001F030763AGGMLVIKNYKKIKNQYFGDWQIGRVEEMKECYALQAFNANTKKSITMAIVREPLAEGTETFETAYHFSLVEDDIRPANIIEDIIYHSVLEDMELFGESLVHYLN
Ga0102876_10397002F022886GGAMLTIKNWDKLTRMFRSQIDIGELELYYEIIYYYPTLPSNEYYRITLSRISPPQQDHPHKDEYLMLCGVSEYWLNKKELENVDSVYEAIVDVVVRHNLKVKV*
Ga0102876_10397003F053288N/AMITIKNYNSDVGHGTFYGWDMKYALEDKDFYSFEFEHRNEQKRVYVLVHRNSKKRTKHVVSEDLYEVYIQDMVSDKWRRTLNLTKPQLHKSAFYNWVESVIDDEYGLPF*
Ga0102876_10397004F036239N/AFATVLNLNQVYKPKWDIELTTNDTTGVITFRILDNVTQHLIAKSHLTKPNIETLQKFREQYEMLVDDILEEAQSYVKKATTNINGTTGIINQVQSASTNVLYGSSSLSTTTPAHLIQTLQTLQQQIDDYNKKL*
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