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 Ga0070741_10006554

Scaffold Ga0070741_10006554


Overview

Basic Information
Taxon OID3300005529 Open in IMG/M
Scaffold IDGa0070741_10006554 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen16_06102014_R1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)24894
Total Scaffold Genes27 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)22 (81.48%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F004595Metagenome432Y
F015499Metagenome254Y
F030040Metagenome / Metatranscriptome186Y

Sequences

Protein IDFamilyRBSSequence
Ga0070741_1000655411F030040GAGGMLDRTVSGIRCRTARPIAHHGGYLPRERSGTIRYGLENLGRTLFLVDFDSGESVMVLPDDVSTIVDDTSRADL*
Ga0070741_1000655413F004595GAGVIEVDFAARRRVQAVATQRARAARPRPLAALQALGRSAGFLVFWRPPTRRAAGEYLGGRWDWGWTLFVWTSDGAVGPVWGDLVNARGYVPQRLTRQGFVAFLRRAGDVGGLLMDGELDGDGHVIRAEPDQLIRRGEALSILGP*
Ga0070741_100065546F015499AGGAGGVGEIIAFAEIVRMRRERVARAVHARCRALIAASVAAARVDLAAAPLEERGVWTARVRKLEDLEEYVSAFG*
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