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_10000087

Scaffold Ga0209274_10000087


Overview

Basic Information
Taxon OID3300027853 Open in IMG/M
Scaffold IDGa0209274_10000087 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)86050
Total Scaffold Genes87 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)61 (70.11%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria(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?
F000362Metagenome / Metatranscriptome1231Y
F015158Metagenome / Metatranscriptome257Y
F016390Metagenome / Metatranscriptome247Y
F023164Metagenome / Metatranscriptome211Y

Sequences

Protein IDFamilyRBSSequence
Ga0209274_1000008711F000362AGGAGMNNSQPSLAVRVDPNDMVRYVQDLMSSPDGAAAPETSLALAQRQWGGDTPEARAAQLRWTALNRAFRDARVGTWTAHPKRDRIHVPAALIAAAGVARLTMAEQEVVFDIPTLLDATLELCEAGGHG
Ga0209274_1000008718F023164GAGGMGKLKILTLSLSVLFTLSCASPDPPPPKQTAFEPMLQPVERAKAVQDTVNSQADATRKAVDSQERGEPEH
Ga0209274_1000008739F015158AGGVSKENSKPSSAPDSAGKPGAPDSKADAKGTGRVKFDDRGNAVWEWSVATGAFGREVSTDRMRRLEHPALSLADDAPTPQETVRANPLGTKKGYDPYDSGKLGKASGPPKKTDLRKLSEVIKLKKQAANNKDDE
Ga0209274_1000008764F016390GAGMRFERFKVETMNDGAMDEATVKFGLLMESAQAHQKLAETHLDKLRAHTEDLDGVVRDEIRRTLIEELQLLTAESRRAADVLRRIRRSIGLRVAVYSIAVAVLCTGIPVAIARWFLPSESEIVGLRARRDELTASMAALERRGGRIELRRCGETERLCVRVDRSAPTYGEKADFYIVKGY
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