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 Ga0209580_10004157

Scaffold Ga0209580_10004157


Overview

Basic Information
Taxon OID3300027842 Open in IMG/M
Scaffold IDGa0209580_10004157 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)6165
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Archaea(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
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002368Metagenome / Metatranscriptome566Y
F031048Metagenome183Y
F040029Metagenome / Metatranscriptome162Y

Sequences

Protein IDFamilyRBSSequence
Ga0209580_100041572F002368N/AMPIQLSPTRIKGSKYLLIPKDLAQLLEIDDGSVLNLTIEDTDKGQRLVYSIRQKTSNAVG
Ga0209580_100041573F040029GAGVLLGINIFLAVSGISALLDRDLPSILQYLFQGAAGAGLVELLLSQGLAGATRVWAGIVYLAFALSSLVGMNIRLAIVRRGMNIATIFSQMVTVPVVMTSALFLSSFLENGGQLVFSPASIVTIAVLVLVANLSIFGLLREYSRLGTIKRGGLVSFPISPVPIAGNVGPSLKSHRPAEEGEDWEESPTKKED
Ga0209580_100041574F031048AGAAGMERTKNILGLKSERQARLVILLVSSAVIIVTSLFAYNRITYEFALAVGNTGQSALGPSTSAGVGIVYAMIAVAAILGFGAVLSVFGSLRNMSNRISSVVRESLPTDSNPGSKEKDEWEQVSTKNETKATDDEILKALWHSKDEKSATAE
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Institute for Fundamental Biomedical Research
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