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 Ga0244777_10067177

Scaffold Ga0244777_10067177


Overview

Basic Information
Taxon OID3300024343 Open in IMG/M
Scaffold IDGa0244777_10067177 Open in IMG/M
Source Dataset NameCombined assembly of estuarine microbial communities from Columbia River, Washington, USA >3um size fraction
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2301
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002245Metagenome / Metatranscriptome578Y
F004051Metagenome / Metatranscriptome455Y
F011299Metagenome / Metatranscriptome292Y
F080027Metagenome / Metatranscriptome115N

Sequences

Protein IDFamilyRBSSequence
Ga0244777_100671771F080027N/AHFSGEIVSAEPRPSIWYGDKTEAYTIEVRTGGLRNKFATIAVKVGE
Ga0244777_100671773F011299AGGAMMTRKHFEATAEILKYMSNKTHPAVFSKTVNDFALMFAKENPNFNVNKFHEACGYSVPNFSSK
Ga0244777_100671775F002245AGGMSNLMKVPHTVVFEAIIDLDKIDAKLLPTLINLPQSEIEKMCKGATLHALQIADVLTVANTGNSWAELTISEGN
Ga0244777_100671777F004051AGGAMTVNGYSYKVGDLFTTLKSHKTGIIKEIIPNASGSVRVLLEMPTKETRWTTVVVGA
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