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 Ga0209262_10152695

Scaffold Ga0209262_10152695


Overview

Basic Information
Taxon OID3300027841 Open in IMG/M
Scaffold IDGa0209262_10152695 Open in IMG/M
Source Dataset NameFreshwater pond sediment microbial communities from the University of Edinburgh, under environmental carbon perturbations - Low cellulose week 11 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1107
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Pond → Sediment → Freshwater → Freshwater Pond Sediment Microbial Communities From The University Of Edinburgh, Under Environmental Carbon Perturbations

Source Dataset Sampling Location
Location NameCrawford Collection of the Royal Observatory Edinburgh
CoordinatesLat. (o)55.9225Long. (o)-3.1724Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F020197Metagenome / Metatranscriptome225Y
F054064Metagenome / Metatranscriptome140Y

Sequences

Protein IDFamilyRBSSequence
Ga0209262_101526952F054064GAGGMTSKLTIPTISKASNKMASEGIKGLVGRKMTKSVKFMGEDIKISKLSVSEVLAIQERAKSIAENEAEGFNVLKLVIKSAVENASDLAEEDFNNFPLDELSRLSNEIMKFSGIGADQGK
Ga0209262_101526953F020197GAGMEQKQKPFSMGYVLRTTAKHMRKSIDISIRKTFERVAEFGNDRSKSEEVFKTLSFLHTMRKQLDDFQAHNSDNFKGE

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