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 Ga0209579_10000040

Scaffold Ga0209579_10000040


Overview

Basic Information
Taxon OID3300027869 Open in IMG/M
Scaffold IDGa0209579_10000040 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen03_05102014_R1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)295373
Total Scaffold Genes314 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)203 (64.65%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria(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?
F000776Metagenome / Metatranscriptome895Y
F001888Metagenome / Metatranscriptome622Y
F019210Metagenome / Metatranscriptome231Y

Sequences

Protein IDFamilyRBSSequence
Ga0209579_10000040207F019210GGAGGMATEPDLRQELAEERRELKEAVASLRAELDRATERGKKVGTIVGAATGAALATRLLFRLLRRR
Ga0209579_10000040253F001888AGGAGGMHHRHRHGWGHGSRIMFRGGFPSRHELLERLENHQRDLEQQLADIADVIAHLRDRDAAQPQQQA
Ga0209579_1000004035F000776N/AMVTCDTRAVGEIDPLGTRRQGLDAFLEQKVAEGYVIETRTGTHAIISRRPRGLSRFTSGADAGRFVVEVDEDGSATMRPAEPRRR
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