NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0209062_1000019

Scaffold Ga0209062_1000019


Overview

Basic Information
Taxon OID3300027965 Open in IMG/M
Scaffold IDGa0209062_1000019 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)720963
Total Scaffold Genes677 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)480 (70.90%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(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
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000885Metagenome / Metatranscriptome849Y
F006229Metagenome / Metatranscriptome378Y
F059669Metagenome133Y

Sequences

Protein IDFamilyRBSSequence
Ga0209062_1000019251F059669N/AMQYVTNVIPEIPVTNHRTQPPWEFLLTASRNTLQSYELSRLGHAANLRKEISSLLDQYLDENANAMVARWLIEQRERSVRASDPESQPAEPPVAPRNGHAASHNFLADRIVRPPAPRTRG
Ga0209062_1000019258F000885GGAGGMSMNSLTNPKVVFIGEVAQIAGVASVVGGVVLSLRHWPAAVALLGGLAAYFVGKKLRGV
Ga0209062_1000019271F006229GAGGMNQQSDVVSLVNICPQKWPPRYRAYFGSLMVNSPEAGESYAVTPIRGCTSVMDLGDKRTMEIRLSAREIADDLAREINGDSGEGSFHGVFVAAGPEPSEAELAEARKKLEEFHARLVEAADLEWERSHNLMFITDLERRAARELRLEKPWLYDRKPMAECPACGERIKPGVAVCRTCRAILDREKAAKFGLGGREAKNDEPEHTPDKKPAKGK
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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