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 Ga0209060_10000370

Scaffold Ga0209060_10000370


Overview

Basic Information
Taxon OID3300027826 Open in IMG/M
Scaffold IDGa0209060_10000370 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen06_05102014_R1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)89210
Total Scaffold Genes95 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)76 (80.00%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
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
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000175Metagenome / Metatranscriptome1756Y
F004066Metagenome / Metatranscriptome455Y
F033311Metagenome177Y
F038361Metagenome / Metatranscriptome166Y
F047848Metagenome / Metatranscriptome149Y
F097887Metagenome104Y

Sequences

Protein IDFamilyRBSSequence
Ga0209060_1000037063F000175N/AVDEGRKRVLLIAASILAARKLAQYDGGKRVPATVAAISDSIRWAEEIMEEIDRRHAEKPAQQPRAS
Ga0209060_1000037064F038361GAGMERSNSDSVEQKSTMLTVQVLWACHAFNATPEEAAKRVVTDLFEQLSRGGSVSVHVASSDGTERTLDVAVESR
Ga0209060_1000037076F033311GAGMRELAKAFLAQGKMVRAAALMLNLIKTEPTPENLELLAEIYMRQGLFDDAAELYLRVVKAGLKIKPLREETLQ
Ga0209060_1000037077F047848AGGAGGMDYVHVFVLRTLCVDENGEVKNRNLAVTFDLFEAEDHRNKSVENGYDTFVVPGDWREEQ
Ga0209060_1000037080F097887AGGAGGMKTFDNSGKQIGRIDQSFSKDKTVTVHELRNITTITVRDRNTGKLTTETLIGQSPFGTSE
Ga0209060_1000037093F004066GGAGMDEALRAKLDEARARLNSRQAGINAARKDEDRATREWARGKQRPANAERTQFRNSLTDEDRRQIEERIQQLLDDNPPLSVTSAATLNARTQPPSVSVEVLDEYYFLRDMIA
 ⦗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.