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 Ga0209062_1002767

Scaffold Ga0209062_1002767


Overview

Basic Information
Taxon OID3300027965 Open in IMG/M
Scaffold IDGa0209062_1002767 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen12_06102014_R2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)22228
Total Scaffold Genes23 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)20 (86.96%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium(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?
F007854Metagenome / Metatranscriptome343Y
F018762Metagenome233Y
F055628Metagenome / Metatranscriptome138Y

Sequences

Protein IDFamilyRBSSequence
Ga0209062_100276710F018762AGGAMRQLRRKLVPVAVVLTTALILPVAAHAIFGTMPVIDWTAVARIGEQIGVSRDTLNTLGLYVQQYNRINAGVQEGVTLARGRQLRGILNDTVSSEFPQFQQLQADFRNVLIDPSAIRHDIEDSYGVVTGDFPLERKKRFDAADATATLGLFDASRMELISEQEELDANDIESRAAVASPSGAAKLSAAANGALLRSQAYNQRLLARLMRLQSLAIARQNSIEKEQEQSRQDQVSAVSTMVGSMQLSYGIGDRAGR
Ga0209062_10027672F055628AGGAGMRDKRLPFCLFVLAVLLLEIGCNSRANMSGVWKGSIEASEKSGKNKWQGPAELTLNQSGDAITGTLVFTHPQGGRVQVPISSGVVSKDTVTFSGQNQFPMGSLELTFHGTVSGTSLTGTADMTSRSMLVGPIANTATVNVTKQ
Ga0209062_100276721F007854GGAGMNTLIANQYGRVQGEVGGTGLTLAVTAETPRRESVQLQTRIDSVEQLLHLLAIMRAVERRIEQFQLREAKPSQPGETESAFDETIGSEGDLFSSNGSSKNKIYGRFAQFLVYEQVDQGRLRVFFAVRDEAKRVARFDLHPGEVQAFHAVAKRALFACNQVDLLLRDDLSLSVGLNVSGHGLQFEVQSPMWHSQFAITKANDLATLAVFTRRAVNQEKTVPVRFGDDATHVSLRKRNDGQVTAEFEHEGSAEKITLSTLQLLELEVLAHHALDRAFEPVSVPLRTHLSSAESATAAQIA
 ⦗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.