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 Ga0209580_10006894

Scaffold Ga0209580_10006894


Overview

Basic Information
Taxon OID3300027842 Open in IMG/M
Scaffold IDGa0209580_10006894 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen04_05102014_R1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4852
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (93.75%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)7 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Candidatus Angelobacter → unclassified Candidatus Angelobacter → Candidatus Angelobacter sp. Gp1-AA117(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?
F011259Metagenome / Metatranscriptome293Y
F011803Metagenome / Metatranscriptome287Y
F037883Metagenome / Metatranscriptome167Y
F042033Metagenome / Metatranscriptome159Y
F044745Metagenome / Metatranscriptome154Y

Sequences

Protein IDFamilyRBSSequence
Ga0209580_1000689411F011803AGGAGMNNQNRVLIRRGARELTPTESEIVSGGFATFSLCTNAPSPDGDQHVGEFGC
Ga0209580_1000689413F042033AGGAGMNDQNRVLIRRGARSLNEEEIARVGGGISTTTLCTIPSTACPNKDGDASIGECGPHC
Ga0209580_1000689414F011259AGGAGMSRQEDSRVLARSGAREVTMDEINQVSAAMQNHTNVCTAVMAIATVTGSGDGDGCSDTDKDSNFI
Ga0209580_1000689415F037883AGGAGMSKQIEPNRVLLRIGARLLTEEEVESVSAAGPPCQLTFTHLPKGGSDEDTFCP
Ga0209580_100068945F044745AGGAGMNDQNRVLARKGARDLNEQEVAMVSGGLRTLTACTLAAAGTLDGDTFNSECGSPDQ
Ga0209580_100068947F011803AGGAGMNNQNRVLIRQGARELTPAERDLVHGGFITFSLCTNNPSPDGDQHVGEVGC
Ga0209580_100068949F042033AGGAMDDQNRVLARKGARSLSEDEIARVGGGINTDTVCTVPTTACPNKDGDASIGECGPIC
 ⦗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.