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 Ga0102811_1038503

Scaffold Ga0102811_1038503


Overview

Basic Information
Taxon OID3300009024 Open in IMG/M
Scaffold IDGa0102811_1038503 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - Flood tide ETM metaG S.705
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1818
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (85.71%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
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)46.2Long. (o)-123.94Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F010532Metagenome302N
F020816Metagenome / Metatranscriptome222N
F066266Metagenome / Metatranscriptome127N
F078570Metagenome116N

Sequences

Protein IDFamilyRBSSequence
Ga0102811_10385031F010532GGAGGMNRTLYKKLEDICAREYIINKLSANKFRTFVDFLYDDIRTWDEPMKVSEVDIIHRIEEHMSYMVSSYLTKSYEGIGID*
Ga0102811_10385032F078570GGAGGMMSDEHIILEGKVMWAFLNKKDKWGAYGICLIPNKKSLEIVKENKFYNYKEDKGLISLRYTELDVKIYDKQNNLVMNLPYYLGNNSHVKVRCESFIWKMNNEKCLHLKDIKILKHVKIKSDINWEVK*
Ga0102811_10385035F020816AGGAGGMKVYEITVSTTVQIDSLDDYAESKEHAIDIMWDRWGVYKDTLEITEVKTWEEDDE*
Ga0102811_10385037F066266N/AVLGITLKCLLILKGDIMSILNEHELEKKIVYTIKEKIQEALAYRTYDSRTNKRCVQDYRKTIRDAKDFDELKRIMSEFVDDLMHI*
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