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 Ga0209274_10049597

Scaffold Ga0209274_10049597


Overview

Basic Information
Taxon OID3300027853 Open in IMG/M
Scaffold IDGa0209274_10049597 Open in IMG/M
Source Dataset NameReference soil microbial communities from the Hubbard Brook experimental Forest, New Hampshire, USA - Hubbard Brook CCASE Soil Metagenome REF1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1990
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Forest Soil → Soil → Soil Microbial Communities From The Hubbard Brook Experimental Forest, New Hampshire, Under Manipulated Climate Change Conditions.

Source Dataset Sampling Location
Location NameUSA: New Hampshire, Hubbard Brook experimental Forest
CoordinatesLat. (o)Long. (o)Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006683Metagenome / Metatranscriptome367Y
F015081Metagenome257Y
F017529Metagenome / Metatranscriptome240Y
F087856Metagenome110Y

Sequences

Protein IDFamilyRBSSequence
Ga0209274_100495972F006683GGAGGMNKPNRADVRQVNVKVSGITFESVRVRRDLRSGDFDIVIHDPNLGSFALTPAIPHLELRDEDSDWRQVTLDDLKKILSDDGELADAAEKPQASEIAERESFNRLVAEGEHIMNAEIALFNAGIPFLQLPFQQNKFASNLFMVLNVSKAKACLLRAGFQPKVDSETVLFDSRNGQPVQLIQGRYGLPRKS
Ga0209274_100495973F015081GGAGVHAHYSEKEKISVVGLIEEQRRLARSKNRCERVLGSLCIGAILKERLVALPNSTIGRLMTDYVWSDLNLLGPESVVVEVASERLIEKYGASMVCPECGSEFWRADE
Ga0209274_100495975F087856N/AMSKLRRADYTEHLAGKTIKRVHWNNDEERKCLTFEFTDQTLCSFKFELAMEEEAELLEFVSDNPSKHRKLIPLPLVRQPIKPLL
Ga0209274_100495976F017529GGAGGMTTQSLALSEDMECPLCLGEGTLKRNEVLDRLGVRDFARVAQLSAEEAFRLLQQKQTHDHHDAWARFETELTKCTAEIEQRHRN
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