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_10000050

Scaffold Ga0209579_10000050


Overview

Basic Information
Taxon OID3300027869 Open in IMG/M
Scaffold IDGa0209579_10000050 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)261938
Total Scaffold Genes218 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)146 (66.97%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae(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?
F000439Metagenome / Metatranscriptome1137Y
F000828Metagenome / Metatranscriptome872Y
F001329Metagenome / Metatranscriptome721Y
F005567Metagenome / Metatranscriptome396Y
F006230Metagenome / Metatranscriptome378Y
F014587Metagenome / Metatranscriptome261Y

Sequences

Protein IDFamilyRBSSequence
Ga0209579_10000050135F001329AGGAGMAQNHYSTKRKRRPKNNNRKDPAAATMAALRERAAAEKAKK
Ga0209579_10000050207F000439GGAGGMGVGKSNGEASHADGLHAMDLQTNSVSAQQVVKAAHEELLQLMRQRAEVMKRIGTVKQTIAGLANLFGDEVLGDDLLELIDRKPNGRQPGFTKACRRVLMEVRRPLGAREICGELERYAPAILARHKDPLASVTTVLNRLVDYGEARSLSNDRGRRVWEWISEGEAEIPARRTA
Ga0209579_1000005036F000828AGGAGVLYRASNQCVAEEKSIFDEQYRVVSIEGDHLVIRGIFSGQVLTIINPEPGTPLTEEEYPPGKLIALTDPSASPLN
Ga0209579_1000005050F005567N/AMGLIVAGTISTGGLAALAVKVSRKNQAGEVLPNSEERKNQNVDQNE
Ga0209579_1000005079F006230GGAGMIQATRFRALPLAWVVLFWCALAAAQAAPNQPPQSRPTTVPGAEYSGMYSFLRDGEFVQVTVEQGRVTGFVSRYGDSENDRGDFLDHFFKSGKLDGNQLVFTTEVVHGISFEFHGTIERGEGKNRGDEAFYVLKGTLTENSMDAAKKTSAHAREVALKSFPLSMDSPEAGNK
Ga0209579_1000005092F014587N/AMSSSGVREIERAIRALTPREIEELYVWLEQHCPQPIDARIQSDLADGRLDSANQHALEDEKNGRVRSL
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