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 Ga0070735_10000681

Scaffold Ga0070735_10000681


Overview

Basic Information
Taxon OID3300005534 Open in IMG/M
Scaffold IDGa0070735_10000681 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
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)35304
Total Scaffold Genes52 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)42 (80.77%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
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?
F000272Metagenome / Metatranscriptome1408Y
F000801Metagenome / Metatranscriptome886Y
F005828Metagenome / Metatranscriptome389Y
F010204Metagenome / Metatranscriptome307Y
F094204Metagenome / Metatranscriptome106Y

Sequences

Protein IDFamilyRBSSequence
Ga0070735_1000068117F000801GGAGGMETQEWTVKQLIEALKKFPPEAKVFYEMGPSGAGTVGKAQYVKARGEDDELGVLLDR*
Ga0070735_1000068129F000272AGGAGGMPQTVLDRTAEHIAETARQASRATSGVADAIMEDGVGVVRRAAKQGGDAAEEFLNDTGQRIQRHPALTVAVTFAVGFTAGALVGWIIKRR*
Ga0070735_1000068139F005828AGGAGMDCLTCKNLEQSLESRCREYVEARSSAYYEVTTEFAAHKNVDKERAKSDLEEHQLVCASAQNETVRSSRQPG*
Ga0070735_100006814F094204GGAMTYVWYESYRAVAVETDWAKMHQRIQSAESKINDRKRVLSLDHGGTPEERQAIANALNAMGTLRTEVDNWQSRQAAQAERRRGHL*
Ga0070735_1000068144F010204AGGAGMRCFWEQTGVLGPIYQSLGQGLNDSQIAKRLGLTEMNVQNCIAWVLHFLKLKDRQELVLYASAGV*
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