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 Ga0208597_1000382

Scaffold Ga0208597_1000382


Overview

Basic Information
Taxon OID3300020562 Open in IMG/M
Scaffold IDGa0208597_1000382 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 05MAY2012 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)17206
Total Scaffold Genes54 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)44 (81.48%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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?
F000447Metagenome / Metatranscriptome1128Y
F003965Metagenome / Metatranscriptome459Y
F024319Metagenome / Metatranscriptome206Y
F034575Metagenome / Metatranscriptome174N
F040623Metagenome / Metatranscriptome161Y

Sequences

Protein IDFamilyRBSSequence
Ga0208597_100038221F003965AGGAMKSNVINTVCVSHTPNKSAISDHNDEQFTFCEICENNIERWYNDSDPERLPMWSDWKVSK
Ga0208597_100038222F024319AGGMTNRIWESLNDYQNEFDAKRLGYVSCSAGCGRVTAWSLCTMCGGNYATHNLLGKESK
Ga0208597_100038227F000447AGGCGGMGYIEIFRLDEQGAGWVDLSEATPSELLDIEIGLLNEGAL
Ga0208597_100038250F040623AGAAGGMKVRISLEQTIDLDDAMSNDIGFELYGPPDMSNDDKIDYLMARFAEDIDTMVKYDEVLGNISIEYIED
Ga0208597_100038253F034575GGAGGMNPIDIDPYLRKQVELGMDGADIMHGHLKTLMVEAEGILDRCIEVEDESGDAMDSMARTEATGYLDALTELYALTYAIAFAKEDFKNRKEILGG
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