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_1000078

Scaffold Ga0209581_1000078


Overview

Basic Information
Taxon OID3300027706 Open in IMG/M
Scaffold IDGa0209581_1000078 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)327373
Total Scaffold Genes337 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)225 (66.77%)
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?
F000195Metagenome / Metatranscriptome1659Y
F001162Metagenome761Y
F001221Metagenome / Metatranscriptome743Y
F002810Metagenome / Metatranscriptome528Y
F013080Metagenome / Metatranscriptome274Y

Sequences

Protein IDFamilyRBSSequence
Ga0209581_1000078107F013080GGAGGMTRTIRTLFAVIAVAFALSAAACADATGPSHGCDIQNSNTCK
Ga0209581_1000078282F001162GAGGVRASWRGSLLAAAALAAPLQAPNYRVTYRLHVFDGAGPDGARLVASGVVAGPPETALKLALRRGEVTLHGLLATLPEPDTVNLAGVFLSRRPAGRSRRRLPLWEEDSYRRWTRLAWGGTVRLEPFGPAGATGRHALWIELSVGREFAAGETRPSEEVSILDDAVAFAAEAVVPPRRVTVRMSLVRGDTASAPRSLDLVPETPGRRVAFVLGRERRDFDVSLERPEPPRTGRDSALAVGADAVCLRLAIPGAAEPARTRCGRLGNVARRLALPGGDTLVAIFAWPAVR
Ga0209581_1000078308F000195GAGMDLTVTRAQYDAVRGARHLPDVLRRVLDAATPAGDGWVLHLTYEEATALNELCAWNVHTDASGAVTPASRVFDELVRAILTHPDY
Ga0209581_1000078310F001221GGCGGVREPFLKAVVRAGGLAMALGAVFLVALPRHASLASDFVDAFTLAFCFTLLGPYVDRVLLALPGIRVGAGPLVRAAGWFAGGLWCYVIGRWLWIRYGRDLAELPGLVWGGVLLLALQPILNRLARPRG
Ga0209581_100007868F002810N/AMTAPLLPLLLHGDDPRMQLLYFWAAVLLALTPVVIFGGLGVWVARKIWRERHGGDGDGVKLRP
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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