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_10000034

Scaffold Ga0209274_10000034


Overview

Basic Information
Taxon OID3300027853 Open in IMG/M
Scaffold IDGa0209274_10000034 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)144463
Total Scaffold Genes104 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)85 (81.73%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(Source: IMG/M)

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?
F002075Metagenome / Metatranscriptome596Y
F006766Metagenome / Metatranscriptome365Y
F006800Metagenome / Metatranscriptome364Y
F078942Metagenome / Metatranscriptome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0209274_1000003425F006800AGGAGGMRPQIAGTYAFKCALLFLASAVFSWGLQAKLSLYKPPQSPSTVTVAKLLTERRSAQTMASLEKALKPDTAWETLNLIPLLVLALAILIPTFRLYQAEMNLCRSRRWDFQDPHLTQRPPPAFF
Ga0209274_1000003465F002075GGAGGMKNQITPAQPMPGNWRELYIAALFETDTMRIAERIADAEKAIVARARELFSAGADTIEEDQALDDALYALRALQSCLNFRAVA
Ga0209274_1000003482F078942AGGCGGMPRPLDRGAHVKLMFLTGKGCVLGAAEMLSPVTWGLQPFKFLALHSDDEQRLQAAIQSSLDQNRRDHGQMERYRAW
Ga0209274_1000003494F006766GAGGMYTGTLIRDLIATVERAERGVQQKQIVDEMELQRLFELQVPQMQNEQAFAGAA
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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