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 Ga0208091_1000604

Scaffold Ga0208091_1000604


Overview

Basic Information
Taxon OID3300020506 Open in IMG/M
Scaffold IDGa0208091_1000604 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 26OCT2012 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)6366
Total Scaffold Genes22 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (36.36%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F014593Metagenome / Metatranscriptome261Y
F017988Metagenome / Metatranscriptome237Y
F020142Metagenome / Metatranscriptome225Y
F044369Metagenome / Metatranscriptome154Y

Sequences

Protein IDFamilyRBSSequence
Ga0208091_10006041F044369N/AMSKIEHILQKAHKKGIYNETMSLAQNIKNENLKIELADRYEIAYEQAKKSLQKRST
Ga0208091_100060419F014593N/AMDPKKDFKKFFQKLFDTPVDIQGEILTSEELTRKNFIIFVDNYRKAVIRSQEMQEKFGLDLWSWEDLFAKSLEGIIYYTFEEEVADVILWYIYEHYLAEDPEDKVIIFGEEQFMIETSEDLYDLICLVEE
Ga0208091_10006045F017988N/AMKFLELTGFGNNHKHFISLRSISDIEFLPNYTSILLNNGHIVNVIENQKQITDIINYHQSEIVSVEYLDDLEAQFEAYKEMDADRFVTGKDMELPF
Ga0208091_10006049F020142N/AMRRSPKRIEIPGKKWNERFIHKNKTWHVVHKQDEITYAICELRNGVVGGIVERFYI
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
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