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 Ga0102877_1070579

Scaffold Ga0102877_1070579


Overview

Basic Information
Taxon OID3300007548 Open in IMG/M
Scaffold IDGa0102877_1070579 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1548B-3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1001
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
Not Available(Source: )

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?
F005633Metagenome / Metatranscriptome394Y
F038227Metagenome / Metatranscriptome166N
F051790Metagenome / Metatranscriptome143Y

Sequences

Protein IDFamilyRBSSequence
Ga0102877_10705791F051790N/AMPDTKITALTALTAADPANDMMPIVDVSDTSMAASGTTKRISINNILACS
Ga0102877_10705792F038227N/AMISLGIALNRLFAGQAGGTDAPVLRRDVLQEDDFFVLQEDGSGKLVITFGTADHLDLENNDFVLQEDNFKLQIQSN*
Ga0102877_10705794F005633AGGMRIATTISVDRNDKAKIVAGPEVDASLQRTAFNTATIPEGGKLILWIQGALAPKIRKG*
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Institute for Fundamental Biomedical Research
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