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_10004486

Scaffold Ga0070741_10004486


Overview

Basic Information
Taxon OID3300005529 Open in IMG/M
Scaffold IDGa0070741_10004486 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)32540
Total Scaffold Genes45 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)31 (68.89%)
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?
F000466Metagenome / Metatranscriptome1105Y
F020078Metagenome / Metatranscriptome226Y
F044475Metagenome / Metatranscriptome154Y
F070450Metagenome123Y
F082641Metagenome / Metatranscriptome113Y

Sequences

Protein IDFamilyRBSSequence
Ga0070741_1000448614F000466AGGMAHVLTFMTNSDSWKSWKKSPSQGVVKRDWVATGRIDFATRLNGNVDDPDQPSEFKLLVEERRIVESITGNENLEIQWRLATLNEAKAVVAQYHRYLTENSLIRSIFDDTVSLPPPKKKVQDIHEDAAA*
Ga0070741_1000448617F070450GGGGGMTIGSVLKIGLGIVCFGFGAACLIAALSILPFISLSDAAIPGAFMALAVIFLSITYLLLRRVRWHIDQSR*
Ga0070741_1000448620F020078GGAGMRPAIRFRWQSGAIALAVIVLAFLVPGIALCKVISLVGIASAIAMTTLLAGLGLYLAGRSVERRTPQCERVDHYLQASIFVIAAGLLWLHMIFQAGPWRERTIEPGPALIIVIGSAIAGALLLIRRARRLAGIGSN*
Ga0070741_1000448628F044475GGAGMRMPILPYVLVVGTLLFGVLVFVSGQLESKPLPVSQRVGVPPPFKAVPDANGSLAGAVSSAAE*
Ga0070741_1000448637F082641GAGMKCCREPSLEDILSDPIVKAVIDADGVDTNELNAMLRCVAHRRRSLERGAPLVARR*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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