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 Ga0207428_10000036

Scaffold Ga0207428_10000036


Overview

Basic Information
Taxon OID3300027907 Open in IMG/M
Scaffold IDGa0207428_10000036 Open in IMG/M
Source Dataset NamePopulus root and rhizosphere microbial communities from Tennessee, USA - Rhizosphere MetaG P. TD hybrid SRZTD1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)223539
Total Scaffold Genes229 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)183 (79.91%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Populus Rhizosphere → Populus Root And Rhizosphere Microbial Communities From Tennessee, Usa

Source Dataset Sampling Location
Location NameUSA: Tennessee
CoordinatesLat. (o)35.8444Long. (o)-83.9599Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001402Metagenome / Metatranscriptome704Y
F005403Metagenome / Metatranscriptome402Y
F007177Metagenome356Y

Sequences

Protein IDFamilyRBSSequence
Ga0207428_10000036118F005403GGTGGMDHEGQRAEYAAQLRAAAEQRFGAARAAELARTIDDVAGWMTDVATFPVTADDLPAFYGEPAP
Ga0207428_1000003612F001402N/AMSVQQRRCRGAELGVDGVSTGRAWPSGEVLLAAEPRPDATRYLLAIPQAALSGEALTDFLGRVAPFGCPVPGSLIRAYSLPDAPFPSILLREHEDAPDGVGDAYRRFLTVARRDWLGALGETGRGLCPVLVWETGATRRLFGPQELSAAVSEAGVALSGVADGYLGRGLLLLAHPELADSWQSLMSLAGPTKIRKITGREFPVWVDLPAHHASLLQSPLLARVERLFDPA
Ga0207428_10000036128F007177GAGVSPLRALGARARERRWSVAAATVAVFSVYQALILAILVVGLGGAPNYARLYPVWDNARRIVRLTPSARDAAVLIGREPIFEYGRRHPVFNVAVWSFELTWSSLLFFLSFSALVGFYLGIGGLAARWGALGSLSGAGVVGLLGASVSSLTHCGLGSFGVLLAVSGVSSATLQWFGTLEPVLIPAGYALIVLAIVARARGLAPAWSVAAP
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