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 Ga0208601_1021473

Scaffold Ga0208601_1021473


Overview

Basic Information
Taxon OID3300020532 Open in IMG/M
Scaffold IDGa0208601_1021473 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 09NOV2012 deep hole epilimnion (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)972
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Moraxellales → Moraxellaceae → Acinetobacter → Acinetobacter baylyi(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa

Source Dataset Sampling Location
Location NameLake Mendota, Madison, Wisconsin, USA
CoordinatesLat. (o)43.098333Long. (o)-89.405278Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000545Metagenome / Metatranscriptome1038Y
F000645Metagenome / Metatranscriptome962Y
F093799Metagenome / Metatranscriptome106N

Sequences

Protein IDFamilyRBSSequence
Ga0208601_10214731F000545N/AMRSDAHPFICSGCKLVTPHIELHKYDASDIAEAPEEVWLVECQRCFMQRIIYPADRVTAKEDDIVRCDQCGKWKMKAAKCRICRLAAGLESISERYWTG
Ga0208601_10214732F000645GAGMSNYLDDYVSVQDRLKEFINAYPDYRIKTHILAESLVANCDVYIIKTELYRTEADTHPWTTGLSSESKSKQYALELAETGALGRALNLAGYFAKTKQSPKKAIETTKPALAEFIKEQRPNDPDPIVWDVAQITKEFGAEIIDEIPLCSGGDGPMVLKTGTKEGKEYRGWVCPTPKSGHPAKWMRVGSDGHWVFQK
Ga0208601_10214733F093799N/AAQNWPDGTFYSLKEQLEDAINDFAGREKLDVELPR
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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