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_10000050

Scaffold Ga0209274_10000050


Overview

Basic Information
Taxon OID3300027853 Open in IMG/M
Scaffold IDGa0209274_10000050 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)120050
Total Scaffold Genes101 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)65 (64.36%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae(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?
F001431Metagenome / Metatranscriptome696Y
F004490Metagenome / Metatranscriptome436Y
F011787Metagenome / Metatranscriptome287Y
F011872Metagenome / Metatranscriptome286Y
F061220Metagenome / Metatranscriptome132Y

Sequences

Protein IDFamilyRBSSequence
Ga0209274_1000005022F001431AGGAMSTIQDVSAEQLAKLFHHYRAALSHDGGGHGIKDESSAWDRAPQNERRLMVAAARLALIELATPPEPAPRRKYYAKPGEADWGC
Ga0209274_1000005031F061220GGAGGMRLATLFCLFLALAGISAAQDTNFSAGPQYLITSSSPMFLHPIATPSLSLEPSLPAIPSLPQIGPAVEDQSFVANPELPHAADLFPIYYGAPMPSVVEITSTELPSELPASITDGGVTGLTSAQSLRERGYGVPLGDTAAFWKAHKRPAAHVYTNADVQRLHAS
Ga0209274_1000005032F011872AGGAMAAESNARTNTGTKKDTLKVEKLSLLVLTLCVAVLVYVLVARPF
Ga0209274_1000005071F011787GGAGMKALTLVGVLLLILGLLSFVVAIPHHEHHGVKFGDARIGVRTENSDRLPPAAGIVLLAGGVVALILGLRKT
Ga0209274_100000509F004490AGGAMECGTKDELEQHLSDIRSLATSRGLTSEQTTAAARAERFAIALVREHDSTGHKGKRCPYATRVSPSLER
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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