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_1001319

Scaffold Ga0209581_1001319


Overview

Basic Information
Taxon OID3300027706 Open in IMG/M
Scaffold IDGa0209581_1001319 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)30073
Total Scaffold Genes29 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)23 (79.31%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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
F055579Metagenome / Metatranscriptome138Y
F075920Metagenome118N

Sequences

Protein IDFamilyRBSSequence
Ga0209581_100131926F055579GGAGGMPEDSNGYTHYVVLNETILGEARIIEKCNECISLAFVKLGIGGPRPFNDYAFVENPALVPKVLN
Ga0209581_10013194F017625AGGTGGMRKKKRKDINEEEFFGFAKKYLSEAFPNPRRLDCPPDSELVGLAEHPKQADPFIPQHLTCCSPCFNRYMEILTDLKHRKAG
Ga0209581_10013195F075920N/AMAAEGSRNFFRLNAVDRRGRKIDPAVLEAAEGIYSRALDHGVKLLGDPAVVTTALEEVAATVSMVIKTKDSPGDPLPIRNLRHYLFRAFLRQIDHLKRKELVAVGLTEVAKVANPPWANPFEQFEHKLLLDECLAICDSVTQDMASRRMHGFTWEEIGRAYDLSAHAAESRFSHALRQARKRLKI
Ga0209581_10013196F016649AGGAGGMRNKPLVLILLLFFATIVTVGCERLTRPNVSGVWKGSIQASEKNGMNKWNGPAELTLNQSGDAVTGTLSFTYPQAGRIQVPITSGVVSKDAVTFSGQQQFPLGGSAEITFHGKVDGTSLTGTIDMTSRGLFGTVTYSGPLTLTKQ
 ⦗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.