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_1000409

Scaffold Ga0209810_1000409


Overview

Basic Information
Taxon OID3300027773 Open in IMG/M
Scaffold IDGa0209810_1000409 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)97258
Total Scaffold Genes97 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)67 (69.07%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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?
F011460Metagenome / Metatranscriptome291Y
F019370Metagenome / Metatranscriptome230Y
F067579Metagenome / Metatranscriptome125Y

Sequences

Protein IDFamilyRBSSequence
Ga0209810_100040915F067579N/AVTTWVAPIGEQLRLLVGWLDPILERPGLAAVPLDELCIELGEAPAVEPFEPFDALVGPVRLEPEGVVADVIPVEAFAAVVPGAAPRVVFARADGSVQLEPFEFVASEAVVVSTVVPA
Ga0209810_100040942F019370GGAMPPSSLTRFAAAAAAFTVLALVAGTATTQAARHSYGPGPRCGGTLWRLMTLSDPDRTRVDLHGADTTIPAIAALHAPARITPYRTTQFQKHVWRLRAVVDRYRIASNGEIVLILFDIDSGKFMDAYLPAKACLGPAARDRTGILSARAQLTSRCPTVTWQWQLVGITVEIGGVGFWNPVKTTRGALPNGAELRPVTNLTVVTGCGVGQR
Ga0209810_10004097F011460AGGAGGMLLLVALAILAIIAFGVGFVVHWLFIVAAVLALIWLISLFAGGAGGRRRAWW
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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