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 Ga0209166_10000096

Scaffold Ga0209166_10000096


Overview

Basic Information
Taxon OID3300027857 Open in IMG/M
Scaffold IDGa0209166_10000096 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen01_05102014_R1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)116538
Total Scaffold Genes109 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)83 (76.15%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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?
F000214Metagenome / Metatranscriptome1570Y
F000238Metagenome / Metatranscriptome1494Y
F000299Metagenome / Metatranscriptome1341Y
F002831Metagenome / Metatranscriptome527Y
F066975Metagenome / Metatranscriptome126Y

Sequences

Protein IDFamilyRBSSequence
Ga0209166_10000096106F002831GGALFSRDRHLSAETKLPVQRYNMRVAVPQDSAHKHHRHAVYASETTGLLLIALVLLILTLVRYWHEIHWSLR
Ga0209166_1000009633F000214AGGMKNVYEVLRQKEMELTRLEKEVEALRLVAPLLSEEKENMSETAKPALAAAVNGPQAPARIPVPSAPSIPAPQPVRAAGWEDTAKRWP
Ga0209166_1000009652F000299GGGGGMENLQNTLSPADRYDLGHVQEVIRQAHDELRQLLQQRAEIMKRIGTVKQTISGLANLFGDAVLNDELLELVDRKSSGRQPGFTKACRMILMESGLAMNSRDICEYFQAKMPDLLARHKDPMASVTTVLNRLVEYGEAEAVMVSGRRAWRWVADLPAGATAESNVIRVARAS
Ga0209166_1000009659F066975GGAGGMGAVRIEYNDFRRQPDRTAAFRVFGREERKVRTPQSSVPDNVRDVRFKPGGRKVPQKTYRPGGNARVRVKRCGKSAPLSQ
Ga0209166_1000009668F000238GGAGLESAKHSPRWYGVPARILVVTFIGTLLCFAISLLLGILGVVSVSLLRGIHPDMSIAYRMIALPAALVAGTIIFVLAIAMEIRHYRQARTLTAIERMS
 ⦗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.