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 Ga0209581_1002550

Scaffold Ga0209581_1002550


Overview

Basic Information
Taxon OID3300027706 Open in IMG/M
Scaffold IDGa0209581_1002550 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)17154
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (77.78%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

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?
F016649Metagenome / Metatranscriptome245Y
F017625Metagenome / Metatranscriptome239Y
F075920Metagenome118N

Sequences

Protein IDFamilyRBSSequence
Ga0209581_100255016F016649GGAGGMRNKPSVLILLLSFATIVTVGCERLTRPNVSGVWKGSIQASEKNGKNKWNGPAELTLNQNGDALTGTLSFTYPQAGRIQVPITSGVVSKDAITFSGQQQFPLGGSAEITVHGTVKDGSLNGTMDMTSRGLFGTVTNSGPLTLSKQ
Ga0209581_100255017F075920N/AMAAEGSRNFFRLNAVDRRGRKIDPAVLEAAEAIYSRALDHGVRLLGDPAVVTTALEEVAATVSMVIKTKDPPGDPLPIRDLRHYLFRAFLRQIDHLKRKELAAVGLTEVAKLANQPWANPFEQFEHKLLLDECLAICDSVTQDMASRRMHGFTWEEIGRAYDLSAHAAESRFSHALRQARKRLKI
Ga0209581_100255018F017625GAGMAKKKRRDINEEEFFGFAKKYLSEAFPNPRRLDCPPDSELVGLAEHPKQADPFVPQHLTCCSPCFNRYMEILTDLRHRKAG

 ⦗Top⦘



© 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.