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 Ga0209810_1000305

Scaffold Ga0209810_1000305


Overview

Basic Information
Taxon OID3300027773 Open in IMG/M
Scaffold IDGa0209810_1000305 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen14_06102014_R1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)126038
Total Scaffold Genes165 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)118 (71.52%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Associated Families6

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?
F004123Metagenome / Metatranscriptome452Y
F004533Metagenome / Metatranscriptome434Y
F007034Metagenome / Metatranscriptome359Y
F014125Metagenome / Metatranscriptome265Y
F031860Metagenome / Metatranscriptome181Y
F032780Metagenome / Metatranscriptome179Y

Sequences

Protein IDFamilyRBSSequence
Ga0209810_1000305108F014125GAGGLSFQIQKRGERRAEVQPDFRQVGDKIIGSTAWLGADGRRVERFQVLTVRDGKIVDMQGCASRRQAERFARRGR
Ga0209810_1000305109F007034N/AVIEQLRAAAEALNRGDPEPFVSLIAAENEWRGVPHGHLWWKRTPA
Ga0209810_100030511F004123AGGAGGMPDYRYELQRGDEVIATGHFSREQPLEVGERITTGGRGGIVRDIAPVLGERELRLVVQLTRDLET
Ga0209810_100030512F031860N/AMYADALLLLFELADREDERFQVAAARWHARFVLEAGLPLREAEGVMALLCRLRGADRLVVRRRLLATVERAGLTTKEIRSGA
Ga0209810_1000305141F004533N/AMTRFESGELGGASLLGYEQALEALLGLIGRRVLVFFSGADGPPFISGILSGRLDRGELDARLQEVLLRADDSAVETLFFHVGSRQNGFVIRPDEFERAFWRSDSQLVLQLGHCAISVLVGGELGSALER
Ga0209810_1000305142F032780GGAMAKRSPQSVLKRAREQALREKRELKQAKKDARAADRRNAAEAPDADADAAPEA
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
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