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 Ga0208800_1001263

Scaffold Ga0208800_1001263


Overview

Basic Information
Taxon OID3300027193 Open in IMG/M
Scaffold IDGa0208800_1001263 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - Freshwater metaG S.541 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3157
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (42.86%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
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)46.2Long. (o)-123.94Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004641Metagenome / Metatranscriptome429Y
F015470Metagenome254N
F058128Metagenome135Y

Sequences

Protein IDFamilyRBSSequence
Ga0208800_10012633F058128N/AMDAIRWFPIVAPSYANVDGILADVHARKNEEKWEEYNKQLIEKIHLRDYLYDLYLKRAHEKQIRMEIFNASSIDVYV
Ga0208800_10012635F015470N/AMATKKVIAKPATKKATPVKKAPVKRTVKKVSPAPASVINVDVSGATKSASSMMDKAIDLIKWVDTPFKLFEVILLASVFFFGYFAWDSRTVILNAITQSSKVTNLKEVNHLVPVAGSLQKDLEATTVIVHKASLNVNTRKTMLAFGPKGRDNSLDGLNSSLFSKDQSRNAGIIGMLNGEVVCDKISVLDKSSEWESKQGVTFICRGGIPPEIGDFDGYVAVGWKKEPTDLTVVKTRINLASSEMSQ
Ga0208800_10012636F004641GGAGGMAEEQKEGAKGAFIEKLLFAILPLLLGSVGYLINALGSIQHDVTILNQKVSLVVTTDNKQASNSGAELAREKLRQDLEKEIQKNRDAIFENRQHIAILEDRAGFGTKKISAMKD
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