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 OpTDRAFT_10012543

Scaffold OpTDRAFT_10012543


Overview

Basic Information
Taxon OID3300000928 Open in IMG/M
Scaffold IDOpTDRAFT_10012543 Open in IMG/M
Source Dataset NameMarine plume microbial communities from the Columbia River - 25 PSU
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterUniversity of Maryland
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)23896
Total Scaffold Genes41 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)32 (78.05%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Neritic Zone → Unclassified → Freshwater And Marine → Freshwater And Marine Microbial Communities From The Columbia River, Usa, Of Estuaries And Plumes Across Salinity Gradients

Source Dataset Sampling Location
Location NameColumbia River plume, coastal ocean
CoordinatesLat. (o)46.233Long. (o)-124.16Alt. (m)Depth (m)1
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F027837Metagenome / Metatranscriptome193Y
F048637Metagenome / Metatranscriptome148N
F067206Metagenome126Y

Sequences

Protein IDFamilyRBSSequence
OpTDRAFT_100125434F027837AGAAGGMKCEMQNFIKFSKVSNVGQKPKRDEWKRDRKIARKNKSLNRKIAS*
OpTDRAFT_100125436F067206GGAGMENTIDLNNICITHRGVKVSVIQHRDMDDPMATKYQEIGIGEPSYDMPIIRYGSTLDELINALQKAKDKIEQGD*
OpTDRAFT_100125437F048637N/AMPSSVYAKACFALGMLTRDNVVNAVDDGLFHNMYEPTMIMHDTKQRKRTPFEAIFDEGNRYGDETIITTDIRKHPSMSVGDILLELTTGYAHVCMPIGWHSLDLKLELKSEL*
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