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_10000237

Scaffold Ga0209580_10000237


Overview

Basic Information
Taxon OID3300027842 Open in IMG/M
Scaffold IDGa0209580_10000237 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)34228
Total Scaffold Genes37 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)29 (78.38%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
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?
F000042Metagenome / Metatranscriptome3762Y
F000309Metagenome / Metatranscriptome1327Y
F010204Metagenome / Metatranscriptome307Y

Sequences

Protein IDFamilyRBSSequence
Ga0209580_1000023714F010204GAGGMCSFWKQTGVLGPIYRFLGEGLNDDDIAVKLNLTVVKVQGCIAWIVHFLELKNREELVQYASMEA
Ga0209580_100002376F000042AGGAGMKNIKFVVKVNRSGTRAPEYVQRVDPTPIHMTTNRKLALVMGKFTAEDAVKSLQTSQCIPELVPVEVTA
Ga0209580_100002378F000309N/AMFPRCRKCTSTIPTAQTPARVEREPDPAIRRKQGTMNPDGNLERILESAVVNHWADLTRGTPAGLIHIEYGFADGGTLDYLKIWSSLSRGHWLLACEYWMSANMFHAAGIGFENGYQSEGLANILEAAMQHQSSFVLPPNLGRQGLLQISTPTAEETAASATLISEVFDRLASPLAQPAV
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