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_10000043

Scaffold Ga0209579_10000043


Overview

Basic Information
Taxon OID3300027869 Open in IMG/M
Scaffold IDGa0209579_10000043 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)272861
Total Scaffold Genes219 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)175 (79.91%)
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?
F001260Metagenome / Metatranscriptome735Y
F013198Metagenome / Metatranscriptome273Y
F069759Metagenome / Metatranscriptome123Y

Sequences

Protein IDFamilyRBSSequence
Ga0209579_10000043114F013198N/AMVSKRRPKVHHARRPGIDRVRLKRGVSARQSGRKSKHRSIPLSQLSEPSYAARDRALHVLAEMRHNPALSLAHAAKLQGVKPGTVKKFFPSALKKADGKFRVTKTDRYTATQYIPDSHGNSVAVKTRSSKDRSALGQYLRDLGRYNRGDRNALTAWKGKEIAGVRLVTDARAIIAMEPALSDFSLYRAFQSGGA
Ga0209579_10000043115F069759GAGMSDQSPIRTARRTVLREERIGDAAFCLFCGYACLEALTLVSRKWLEANGISQSRLDRLVQEHHIIGYAHDPDLTMTLCLNCHKEITEGLAREGVSMRPEKNLRMLIALVFRASAVLFERLASSYRKWARLLENQDEL
Ga0209579_10000043215F001260GAGMTEWKVIALISGQIEAVSDPAAQARPRIHEWTVWQGTAADQGEALQSAERADTKADLQWMRIRYELDLNKW
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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