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_10000053

Scaffold Ga0209274_10000053


Overview

Basic Information
Taxon OID3300027853 Open in IMG/M
Scaffold IDGa0209274_10000053 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)115056
Total Scaffold Genes101 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)87 (86.14%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(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?
F014053Metagenome / Metatranscriptome266Y
F024354Metagenome / Metatranscriptome206Y
F094165Metagenome106Y

Sequences

Protein IDFamilyRBSSequence
Ga0209274_1000005316F024354GGAGGVHEGYHEADIVFRKNPSDPFDFVPGDTSDVIKGEISCYRQAANLSGEILAVREAKRISAVDPAQEVINRSRQCSKFFAYEPGVDPPGHFVEEKATALEEDRRRFEKTLTDFQATLSARDSRRNWRLGIYALIIALIIGCVQIWASAVAMPSDAIGINFGRRVLAYTQTVASWFNRTF
Ga0209274_1000005395F014053GAGGVRRISVDHERLMRESTDRVESALRSDDPIEQLVASRLLASPAVFRIWENEHSGLMREVANTGFRRTQAALLKKATFRLVHRKALFEYLRDQRVRGSARQRIVLTFHPTQDYTRSVIAEHEVYLRKACSFLCTSHVGANVVHDPGFFDPMRHYQALYAEYFQIFCRTHFGPASVEVEPQSELLPLLKYQLEECRKAIMNPQPEKEWLRREAELREPTGDTVRLRGFKPKPWRHL
Ga0209274_1000005397F094165N/AMRKASISSNDDRRPIIAGFTQEDFERLNRLAHARNLRSIIKCTKWLNEHGVELLQRYPQEFRDGTGMTVEQYLHALTVHVDCCRAFLKRM
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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