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 Ga0070741_10000675

Scaffold Ga0070741_10000675


Overview

Basic Information
Taxon OID3300005529 Open in IMG/M
Scaffold IDGa0070741_10000675 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen16_06102014_R1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)117362
Total Scaffold Genes122 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)84 (68.85%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(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?
F008664Metagenome / Metatranscriptome330Y
F013143Metagenome / Metatranscriptome274Y
F020395Metagenome / Metatranscriptome224Y
F035105Metagenome / Metatranscriptome173Y
F035980Metagenome / Metatranscriptome171N
F063110Metagenome130Y

Sequences

Protein IDFamilyRBSSequence
Ga0070741_10000675114F013143AGGAGMNRFVLGAIVGAVVVYVWGEDLRRFVEGRGRDARLAAADRLRSVQSTAEELLDHAKERVSGTLQAGQDALHPDRAPRSSR*
Ga0070741_10000675121F008664AGGAGGMLGRLVMAAIAGALVWKYRDSLREYAKGNQAPAREKLADLLQTVQQRSETLLDRTKEQISTRLDTAQDRLRRGGFEPRQEDVPSSSFRG*
Ga0070741_1000067532F063110GGAGGMREVGWLVLAIVVGILAAVGWVARERWIMRRRRR*
Ga0070741_1000067540F035105AGGAGGMIRYKFCAVTAALGGVLVAVGPAAAECAWVLWSQVYDPRPGAWQLQTAYPSVGACTKALDQREKEGRKAVYVTESGGKIKGLAERRADTDLLLRYGNDDGAGGIAWQCFPETIDPRGPKTK*
Ga0070741_1000067545F020395AGGAMSHEEELRALERTLAAYRETLKEVNRLGGDGMETVRTEWLQRVKELELQREHVSHVVRRARRGRL*
Ga0070741_1000067576F035980GGAGGMRIPTIVVLLPVAALLVALAPVAASAQPLTLKTSPAPGPVPGDRVAPAVPDRDLYPQRPSLPQTPHFIGPLSRDSATGRAGVAGYTAANPAVGSRVAGDHDNPGWPSIGVVFEWGRSHRAN*
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