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 Ga0209810_1000054

Scaffold Ga0209810_1000054


Overview

Basic Information
Taxon OID3300027773 Open in IMG/M
Scaffold IDGa0209810_1000054 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen14_06102014_R1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)335871
Total Scaffold Genes380 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)224 (58.95%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Associated Families5

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?
F003367Metagenome / Metatranscriptome491Y
F030536Metagenome / Metatranscriptome185Y
F057559Metagenome / Metatranscriptome136Y
F064127Metagenome / Metatranscriptome129Y
F087834Metagenome / Metatranscriptome110Y

Sequences

Protein IDFamilyRBSSequence
Ga0209810_1000054142F087834AGGMLDEARKLDGEGDFVEFAVAGSPASGEFHCSGCGYGITVRTTLPQCPMCGSTTWEQAAWSPFLRPHLQ
Ga0209810_1000054146F030536N/AVTVRRLVLAAAVVVVFALGVALGEALHDASPSAGTQTLVRTLRPLPLAPAARQTVTITVSKP
Ga0209810_1000054151F057559N/AMDYVTGSAVPRIVGDAFVRGERRRELALDSFRGSWLVVAFGVRGADVDELARLEEAFAADGAVVVAATPSDWHDVAERYGASAARFPILTGVDERRQVTLVVDPGGVIRHTGLRRSARETLASLEALLVPAVLAA
Ga0209810_1000054206F064127N/AMEEGGPRRSLVGMKRRLLFVLLVTGLLVLALAGWTVQGLRWAASGGWTRPLPQPA
Ga0209810_1000054255F003367N/AMARVRGLLTLCVLLAACAVLSAGCGDTSRKAEAAPAPRPHCLDRPGWQRLANRIHAPVYCPGWLPDPLTGRIGAPDNNVDAVSRDRSYLESWIWQDTDGPNLSGELHVILRAYPGRTTIPICRTGGADSQNVPCFAQPEQWVSANGIRARLYTVNQDMDSWHLVLLWRRHGNLYTLSEHRAAPLTYDHVLRYLKRELASLVLIRPSAA
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