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_1000237

Scaffold Ga0209581_1000237


Overview

Basic Information
Taxon OID3300027706 Open in IMG/M
Scaffold IDGa0209581_1000237 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)162366
Total Scaffold Genes145 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)103 (71.03%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
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?
F020297Metagenome / Metatranscriptome224Y
F025048Metagenome203Y
F030458Metagenome185Y
F031889Metagenome / Metatranscriptome181Y
F041367Metagenome / Metatranscriptome160Y

Sequences

Protein IDFamilyRBSSequence
Ga0209581_1000237114F020297AGGAMNFLQIIQTILKVAPAGIQLTQEVVALVQAIETAFSAGQTPVPHQEAVASALGAHLAKQ
Ga0209581_1000237132F025048GAGMLNPAPISDAIASVLLSIPELNAAMGGRINAFHYRLGQEHRLAEAIYKMPAPSMLIAWEGSKGGNFDGQTIWKHRWGVYYRMGNAAGVADPVGYEDLWWITCNRPPGGRGPNIRYLQLYSGLDIMDTPSIDHELDEDLIDRFKGVFIIPEIGDN
Ga0209581_1000237135F031889AGGAGGMYGDIPVEGITIRVPNPPKTAFLRLPTNQEMLERLDQQRSIRRTIGRRKSQTEFVPNLKADLDLFNKIRLDKDGAEFDEFEAGNAISKLSFCEVTDCQRAGDEYRIALRTPFGETIHQVKIPMQRDITVYRRTVVSSTDLPHGQEELRYRIEPAVGLYDSVVTKVEGYAASIKPADVPPHHKSSVVVELVQAIDDLDPALDPNS
Ga0209581_1000237136F041367N/AVRAAELCDGGADGPRGCPDANDVRCGKCGLARTVDDTNAPGACPQCGGWQFTVSRCAHCKLDDLDYARTHSNAGRLFERLLELEFDAAHFSIPWSDVTAEEVRGLQILKEERNRYQREQMQKQPHAFPCPS
Ga0209581_1000237137F030458N/AMPFHARVSRARFVLGPFTAEDMQTIGGVLVDSISTRIRKALNVNDAPAKALKPGRNGRRGYPDYKIARGLMPIRDWIWTGRTLRSLKVKSANENQAVLGFVDPTVDRVAHVNNLREKQFGVSPKDRSALNAAVLAVLRQARAIRVKRAA
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