NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0209810_1000510

Scaffold Ga0209810_1000510


Overview

Basic Information
Taxon OID3300027773 Open in IMG/M
Scaffold IDGa0209810_1000510 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)84069
Total Scaffold Genes88 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)66 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F012524Metagenome / Metatranscriptome280Y
F017527Metagenome / Metatranscriptome240Y

Sequences

Protein IDFamilyRBSSequence
Ga0209810_100051010F012524N/AVDVTADFPTDAAETAPARGRGDKIARLLREIDALIADDEAEDRRITGGWRTFADIVTAAHTHAWDAYSVDLSRDAGSFRRLSRRRQEAVKRIFGTIYRAESVVDDWMDRIVASLPREPEYESMRAALMTQEHDEGMHRGSLLRVATEVLGIDTADADRVARKYNNFVAEILFDRFEDEMRHLLRPNRPIEDVYTAIFIYGVISEDVVANSDVVIRRAKGNAIYDAYDLPGMKEGQTNVRRDEGRHVRIAVLATHRFLEEYEDAAERLLAVCNEYMDLADRMVRRAKASRGLIDAHLAESYGPDVDSLYYYVMNMKRLAVRLGELGLREGVLEVKRRVDASIAELSGDDGAPIVETPGRLLRLVGPKMMRLAGASRLAG
Ga0209810_10005103F017527AGGAGMAAVRRGAWVALRYVTSIFLLGVIAQFFLVGYGLFAMKHGATIDNAKSLDPHRGLGWTLSTYVAPLMLILVLIAWPARRLLGMWVLLAVLGFFQAILAAGGVHHWGVGMFHPVNALLLLGLSGHLARYAWTTGRRREAAIAAAPAPTG
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.