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 Ga0070730_10000471

Scaffold Ga0070730_10000471


Overview

Basic Information
Taxon OID3300005537 Open in IMG/M
Scaffold IDGa0070730_10000471 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen01_05102014_R1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)47401
Total Scaffold Genes44 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)34 (77.27%)
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?
F000391Metagenome / Metatranscriptome1196Y
F000749Metagenome / Metatranscriptome908Y
F019706Metagenome / Metatranscriptome228Y

Sequences

Protein IDFamilyRBSSequence
Ga0070730_100004711F000749AGGAGMKSRNTKPRVAPQITIRVSGKLFQGHLAYLEQLVQSASECQLWPLLNLAQLEELDRDALFYLIDGEDRQFAIISCPAFIRDWMDHERARAAA*
Ga0070730_1000047135F019706GGTGGMNIPMPVLPLAIRIPGAEKKKRVLLLDTSSHKRDLRAEIMRKLGMEVDCAADIAEARSWWRADLYDLVLINMEKGRGHRDRFCDDLRGATPPQRLAFLVGEPAYLASLPIEDDQFLLQNAGRQVLIGDLKAALSSDPNANQRWGILEASRRISAVRSTCNARTTAMRDRPAPPRDADARPSRSAGPPTTLDDLLREEMQ*
Ga0070730_1000047139F000391GGAGGMTTEPQLSESPYCVKIETANGQSSTVPIAFLTSKQLEVFLQTEFKRLAEEAGVKGARLHVERAVAADYDQVLREVSACLQSAKKRAA*
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