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 Ga0208082_1001929

Scaffold Ga0208082_1001929


Overview

Basic Information
Taxon OID3300020563 Open in IMG/M
Scaffold IDGa0208082_1001929 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 09JUN2009 deep hole epilimnion ns (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5845
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (18.75%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families3

Taxonomy
Not Available(Source: )

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?
F033800Metagenome176N
F096647Metagenome104Y
F102565Metagenome101Y

Sequences

Protein IDFamilyRBSSequence
Ga0208082_10019291F102565N/AMDKRIFKRCPTLGEYHGMALPYVKSQAEYREFYNQHKEMIDMEAIVYSEINEDRKKMGGDKKIHMNEK
Ga0208082_100192914F096647N/AMVWEFLNTKYSGVMIYHQLFNLSDKLMEKFITDRGNGIIEFSRFHHGKDVRTRVNSFLRVDIKKYFDIHDIDIEMYVLEWCRNKSTKVVEM
Ga0208082_100192915F033800N/AMVPEKYPMVSDIKVIDDSYEYHNSTKYNIYLGVTPDELETLRNSDVRDYVEDVSRYVLNGNETLRIIFYNPEHW

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