NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0164293_10165866

Scaffold Ga0164293_10165866


Overview

Basic Information
Taxon OID3300013004 Open in IMG/M
Scaffold IDGa0164293_10165866 Open in IMG/M
Source Dataset NameEutrophic lake water microbial communities from Lake Mendota, Wisconsin, USA - GEODES118 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1627
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Archaea → Euryarchaeota → unclassified Euryarchaeota → Euryarchaeota archaeon(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Oligotrophic, Dystrophic, And Eutrophic Lakes In Wisonsin, Usa

Source Dataset Sampling Location
Location NameUSA: Wisconsin
CoordinatesLat. (o)43.099Long. (o)-89.405Alt. (m)Depth (m)7
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000311Metagenome / Metatranscriptome1326Y
F001125Metagenome / Metatranscriptome769Y
F006984Metagenome / Metatranscriptome360Y
F047650Metagenome / Metatranscriptome149Y

Sequences

Protein IDFamilyRBSSequence
Ga0164293_101658661F006984AGGAMPNWCYNTLTIQGPKSEVDMIKDRLNKPFTLAQETYGMGDISTMGFPTKIEQVSYSNPVFAFFNIHSYKDDGITDEEYACQPDRGGIDMKDPDWFRKSVEF
Ga0164293_101658662F001125AGGCGGMGDRANFGFQDRKGDTVFLYGHWAGYQMLQRLANAVSKAEPRWTDESYATRICISQLINEDWTGETGWGITINELSDNEHRVPVINWSKQTFTLMEEDLKTEVFSLPLSAFVTKYSQLVMV*
Ga0164293_101658663F047650GGAMNSEDLDLVYYCDACSIARASYLIKLLDGELAMCGHHYNKHREALDEKAYEVIELNKTEEAIPQLEKAE*
Ga0164293_101658665F000311GAGGMYFELTAPDRLSLEMAYWDAQITGLDPEFMPPLTFNIGTGSIEKVSRIRDKYNLKESYWSDRETTGYKEK*
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.