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 Ga0209167_10000004

Scaffold Ga0209167_10000004


Overview

Basic Information
Taxon OID3300027867 Open in IMG/M
Scaffold IDGa0209167_10000004 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen05_05102014_R1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)595036
Total Scaffold Genes542 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)430 (79.34%)
Novel Protein Genes9 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)8 (88.89%)
Associated Families9

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?
F002004Metagenome / Metatranscriptome605Y
F002288Metagenome / Metatranscriptome574Y
F004485Metagenome / Metatranscriptome436Y
F036259Metagenome170Y
F060169Metagenome / Metatranscriptome133N
F062503Metagenome / Metatranscriptome130Y
F064445Metagenome / Metatranscriptome128Y
F078444Metagenome116Y
F087511Metagenome / Metatranscriptome110N

Sequences

Protein IDFamilyRBSSequence
Ga0209167_1000000423F036259GAGMFGAHRRGFDWKEIAKVLHVTRAVGRATFWREIKRSRSKSVAAQPPAIVIQDESDSDAKKLRKPRAYR
Ga0209167_10000004236F004485AGGAGGMTYREQYTTYPASALQSYRFWSAHVDALERHLSAGTWAMAAVTVVLIAYPIARTVIPPILHGIVPDVVQAVLNLI
Ga0209167_1000000424F002288GGAMGEADGVHKRRMFRWPKEARELVREYKERTKRSQELTETGRRMLVTKLAATSGNPRDACLRFLRELGVNHKRAYREWTKSEQQRLLDLITAMPVAEAAKILRRPAGSVRSMLHRLGIGGKTGREWFTKFSLSRALHTRPDEIQKWIDLGWLKSRSLTTAGTKANIIHADDFCQFVKEHGRAVASRRLTYEALWFVQNYVFPPSHAELLSVRGTYKRHDAGDETAGNTESQSVSGSEEDGGQEG
Ga0209167_10000004366F064445AGGAGMKNSGIPPELAPNITIRVSGKLFQGHLAYLDQLVQTALACDLWALLDLAQLQELDRAAVLYLMRGEGHGFGVVSCPNFIREWMFYEATPRVA
Ga0209167_1000000445F062503N/AMGVELTMKDLSQVLSQKEMDIERVRKEIKALHFVIPLLAEDADRLEHGLASLPVPQLGETGTTAVKEQPR
Ga0209167_10000004485F060169GAGGVGRLLLIDVVGAAAALGLWYLVFALYNRRKGKAALHWVQDACAGKGRVLDSRWLGLGNSRLHARLQFPSRGFEDARVTLRFRPRPLPVHWIVSCCHRQRETLTFEADLGGSPSFHLEVVRHRWSARSRGVGTRQRDEREWDLVHPGPLILTTRTHWKEDPTSELNALMAVRQQDVLQVRFRPESPQFSVTVTLDALSDPATAASFLSTLRELAAGASAHRQ
Ga0209167_10000004492F087511AGGAGGMSVSADRTMGRSMSVGGPLAASSYVLWVPLMGGLWVLTNVGFVYLGLHVAYSLPCCLFAGILNGTLFSVIAVAKASERFQAGVTGLLSGMSLSGLRKDGSMMWKATESVHAFVDQALRALGIEGGEQFHQQIEQQALYIIWTTLFVVVASLIAEWVRTSRAAES
Ga0209167_1000000455F002004GGAMRTIPNSRRLDGHISRALNKIKKPSTAEEITELLNRDLEPQDRPFQTKEVAEWLRNAGDTALTLYWSRIRLRR
Ga0209167_1000000473F078444AGGAGGMSDAKTHSSERVLTNQREEEVIEIDENGVVHAVGYTPSQLKSTVLRDPEGEYGND
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