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 Ga0209581_1000280

Scaffold Ga0209581_1000280


Overview

Basic Information
Taxon OID3300027706 Open in IMG/M
Scaffold IDGa0209581_1000280 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen15_06102014_R2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)139539
Total Scaffold Genes154 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)121 (78.57%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Surface Soil → Surface Soil Microbial Communities From Centralia Pennsylvania, Which Are Recovering From An Underground Coalmine Fire.

Source Dataset Sampling Location
Location NameUSA: Pennsylvania, Centralia
CoordinatesLat. (o)40.7999Long. (o)-76.3402Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F025048Metagenome203Y
F030458Metagenome185Y
F031889Metagenome / Metatranscriptome181Y
F046796Metagenome / Metatranscriptome150Y
F050849Metagenome144Y

Sequences

Protein IDFamilyRBSSequence
Ga0209581_100028035F046796GGAGGVDVLENILERISETQEQREVYLRQAEAEEQKIAKLEQMYYLLEDPATQELMKDVVVGMAVQNGVPVPNGNKGDAGEKHYVGMQRVREYVTAMPANREFTVHDVFTKSIEHMPSTPKIRHPEFEKQRKASISLALTSMAKAGDIEVVKQGRGREATVYRKQEGK
Ga0209581_100028045F050849GGAMPIRADYFEREAGHIVVCLILIAMGAGLWLLKVPKGEDLIPFALGVLGRSMVGRKNAPEDNK
Ga0209581_100028060F030458N/AMPFQAKITRARFVLGPFTSEDMLAIGNVVVDSIKDRLHKGLNVNDQQAKPLKPGRNGHRGYPDYKSARGLQPFRDWFWTGHTLRALKVKQASENRCVIGFIDPNADLIAHVNNLRERAFGISPKDRQVMVAAIKTVLRTARVISVRKAA
Ga0209581_100028063F031889AGGAGMYGSIPNEGIAIRVPNPPKTARVRLPTTEEMLGRLAQQKSIRRTIGRRKSQTEYVSNPKADLALFNQIRLDKDGPEFDEFEAGNAISKLTFCDVTGCERVGDEYQITLKTPFGDTVHTMKIPTQRDITVYRRTVVSSTDLPHGQEELRYRIEPAMDLYDSTVSKIEGYADGYKAADVPPHHKSAVVVELVQAIEDMDPSLDPNS
Ga0209581_100028066F025048AGGAMLNASPIVDAIAGVLQTIPDLAAAMTVLEGQSPVCRIEAFHYRLGMDYRLAQRIYKMPAPSMLVAWDGTQGGNFDGQTIWKHRFNVYFRMGNAAGLSEPVGYEDLWSILCNQPPAGSPVGIRYMHLYPGLDIMDTPSVAHALDEDLQDRFVGTLVIPEIGDN
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