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_10000031

Scaffold Ga0209579_10000031


Overview

Basic Information
Taxon OID3300027869 Open in IMG/M
Scaffold IDGa0209579_10000031 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)355916
Total Scaffold Genes303 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)191 (63.04%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (42.86%)
Associated Families7

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae(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?
F001765Metagenome / Metatranscriptome639Y
F003832Metagenome / Metatranscriptome466Y
F005268Metagenome / Metatranscriptome406Y
F005420Metagenome / Metatranscriptome401Y
F017747Metagenome / Metatranscriptome239Y
F076413Metagenome / Metatranscriptome118Y
F101563Metagenome / Metatranscriptome102Y

Sequences

Protein IDFamilyRBSSequence
Ga0209579_1000003121F001765N/AMMEGMPYISEHLSSLRQEITDLRNLNANVSKNGHTSEVDQTAFELRTNRLREIKQELSRMLNHPDDPKVWWERFRKSTPA
Ga0209579_1000003122F005420N/AMILSCIGIAIPVVAQTPTIYAESFRKGATKIAEDSFEAKLTPSDATYRERIKDTAGNDRYELTITPQGPEGDNKITSWKVILKDLRHSIYNNILLAAQEPSADAKNNLWWLDPNRFGPVPIRARRIMKVDGFYVAFEVKDLHFTPLDSPYLDSMEVKFAFTNSDPRTAP
Ga0209579_10000031237F003832N/AMQSTAKLQGNETNWPPEAGDVISFKSSTGPETAILKEVRWGLVWRDFILEDGRVIPEHRISGCPQPQVWRKIDEVSDDEREEWEERLLAMAGARMDPRTRDQPFWAELNQYLAYTYLRFKHSERNVQDTGR
Ga0209579_10000031238F005268GAGGMSPSDEEIEAQQVWRTLSEAGLVEIRVDEFAEKIREVKRVVVVRLRELLDFDTSMKERESAASSLGTLKGLELKVLENTPESPDPSEM
Ga0209579_10000031281F076413AGGAGMRLLKVLGLFLCALALCSIATAGVNKMGIHDVSRVTFSSAVRVGTALLPAGEYIVRHSMEGQDHVMVFQNVEGKEVAKVKCTLVPLAKKADKSEELYQLNAGNERVLQELVFRGDTSKHV
Ga0209579_10000031301F017747N/AMMVVLPVSLWAQDTGAAMLRSSGGVLVNKNPAPASTALLPDDLIETQKDIAAHIEATGSTADMRPETIVQFEGDELVLEHGSVSVNTARSMRVRVGCITVTPVSAEWTHYDVTDTNGKVTVSALKDDVYINSGSKNPQDAKQSAQSTHSDRTIVKEGEQKSREEKCGGAAFKESSRFAARGAFMNSPWAIGGATVAVGVLTCWALCRGDDPISPSNP
Ga0209579_1000003132F101563AGGAGGMRKYGPSVLFLAVLAIAITLACGSSPRPRTLESVSLSPPTADAQGGPVQFTATGYFNDQPLSEKLVVVNWGACYQNQQTTAVSVSAGGLAQCASGAAGTYTVWAWAQSAADSCGGNNGEVPVNPCGGAGSCQPTGTAQLTCP
 ⦗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.