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 Ga0208235_1003512

Scaffold Ga0208235_1003512


Overview

Basic Information
Taxon OID3300020530 Open in IMG/M
Scaffold IDGa0208235_1003512 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 22OCT2012 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)2308
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (90.00%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Associated Families6

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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?
F000821Metagenome / Metatranscriptome876Y
F001477Metagenome / Metatranscriptome687Y
F003863Metagenome464Y
F017972Metagenome237Y
F037113Metagenome / Metatranscriptome168Y
F093237Metagenome106Y

Sequences

Protein IDFamilyRBSSequence
Ga0208235_10035121F093237N/AMSYKYTLAEAGKMTNQELLNALLAREVAPRTIVGTGYINARQVAIEYLQEEIAKEREGQENPYEDCPKEESK
Ga0208235_10035124F037113GGAGMSKWTVWVGAYEVNWQHYAYKIDAERVAEFYREVKGYDDVIVEEIA
Ga0208235_10035126F000821AGGAGGVNREYLEAKVDLCLNQAEIDLQQEEIARAIANLRRANSALSQLFGFEEEDKSE
Ga0208235_10035127F001477AGGAGGVSDDRVLRILDNGTKFMGDSNIYTIHPRKSELILLYEVVDESGRAEWGGASAEQAMQWLTLAPDNARLLVSAWDSDEEDAHLVGQTIDITEIIQRAREVGR
Ga0208235_10035128F003863GGAGGMESKEVSGKQSIHYRNYRRARDKALVRLAHLYPDTYKQLLDEQRSFDEQEGKTWIIDSNSRLTVGIHTRANAVPEVAGRTDYEGADESDDGGEA
Ga0208235_10035129F017972GGAGGVRTSHLQLVTHEHSATIKSKSDVLSPYGPVNPASTTWLAQETLRANQEARLLELLNSLESVVDNLNFKSFTVYDTLITAMEGVRVALSATPIDEAGTDADRS
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