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 Ga0209579_10016735

Scaffold Ga0209579_10016735


Overview

Basic Information
Taxon OID3300027869 Open in IMG/M
Scaffold IDGa0209579_10016735 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen03_05102014_R1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4231
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(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?
F000042Metagenome / Metatranscriptome3762Y
F000309Metagenome / Metatranscriptome1327Y
F026982Metagenome / Metatranscriptome196Y
F046579Metagenome / Metatranscriptome151Y

Sequences

Protein IDFamilyRBSSequence
Ga0209579_100167352F046579GGAMDHIIQVELRTDTTHTLTWLDAALKPKPGMVLLCNGDPRPWTVVHAYHITAQETWETHTNWKVDGSGRHRAE
Ga0209579_100167353F000042GGAGMKNIKFVVKVSRGARAPEYVQRVDPTPIHMTTNRKLALLMGRLTAEDAARSLHTSQRVPELLPVPVVASTLL
Ga0209579_100167355F000309GGAGGMAHNGTQSLEQILESAIVVSWADLMRGIEAGLIHVEYGFAPGDTLDYLKVWSSISRGHWLLACEYWMAPSTFHSIGVRFENGYESEGLAHILESVMQHQNSFVLPPNLGRQGLLQISAPTAEDSATAAARVRLAFDGLASPLAEPAVA
Ga0209579_100167356F026982N/ARFLGIPYVTVSAHSRHMQQSCYLDSAVARQTFQRNSEWARG
 ⦗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.