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 Ga0209168_10000893

Scaffold Ga0209168_10000893


Overview

Basic Information
Taxon OID3300027986 Open in IMG/M
Scaffold IDGa0209168_10000893 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen07_05102014_R1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)25861
Total Scaffold Genes25 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (68.00%)
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?
F008048Metagenome / Metatranscriptome340Y
F041995Metagenome / Metatranscriptome159Y
F042540Metagenome / Metatranscriptome158Y

Sequences

Protein IDFamilyRBSSequence
Ga0209168_1000089316F008048GGGGGMFKSAMLQIADKGTAEERLWRAVITKTLEEWICGPLSFSRKAEQFLFEDKKDFKAVCSSAGMDPDRLRTRLKTLRARGVQKESIPFRVRTNKRLTLPQPAGWSHGAIGV
Ga0209168_1000089322F042540N/AVARARKLFPIYGSSLANNILVALVHDRVVAGFVQTYVAEHQRRGILGGPARDRELAETIGREIVMALIVETRNALPRFFGKQSVAKLKPEEKEAIEAFFGELLAALARAQNWNAEDRRQFRRDLNLYMEFAERPRKPAKTRKKAHAGQEEPPFSARVALLLDPSMLEQARGAARKFQASLVPIARKLLRQTLG
Ga0209168_100008933F041995AGGAMLVKIVDEIESGAEARVFPPEHKHMDLRANPKDIDRIAGAQNHLPLRNFLATVNGADSIFATARATTKSDVPAAVPADRAYEFASQSTVVFADPDLNWDRKNYAELASGLKELLERETGDTVRAVLLISSCHFADRKRQGFCLGIRLVAEGESAQQAETRWGLGLARVQQALLFRSRAMRQLARD
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