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 Ga0209060_10010302

Scaffold Ga0209060_10010302


Overview

Basic Information
Taxon OID3300027826 Open in IMG/M
Scaffold IDGa0209060_10010302 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen06_05102014_R1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5604
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
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?
F016890Metagenome / Metatranscriptome244Y
F030272Metagenome / Metatranscriptome186Y
F079284Metagenome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0209060_100103022F016890N/AMARETYKQAYATAKLDLLEQLQKRDALDQKIRKLKQTVKALGELCGADPEEIDKLLLVEGFGIDAKPGFTDSIRRLFRIHQTALSPTDVREDLVKMGIGVGQVNLLSSIHTVLRRMAEAGEIEKTEDGAFRLPG
Ga0209060_100103023F030272AGGAVNKRTVYVAILALLCVTTLFVFSQTSSQFPEMDKNGKPVLPRPMPHLVYSPTDLAHSGVAFPASAGAPTPNTSIIRLGDATKMTIFASCTQNFDLVMNVYTADDQGQSSPNFTFYNSYVIATNMTLGAQQAFLATELAPTVTSGTLQIPVRLPQLAVSFFERNATAVAGTCTDRVIVGY
Ga0209060_100103024F079284GGAGMKWTGEYIIDDAGQCRWHEGLRIHDEQMKSAYRKNSLVEFIIETTAAMGVKVGIA
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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