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 Ga0209085_1008878

Scaffold Ga0209085_1008878


Overview

Basic Information
Taxon OID3300027741 Open in IMG/M
Scaffold IDGa0209085_1008878 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Croche, Canada to study carbon cycling - C_131016_EF_MetaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5100
Total Scaffold Genes19 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (36.84%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → unclassified Flavobacteriales → Flavobacteriales bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater Lake → Freshwater Microbial Communities From Northern Lakes Of Canada To Study Carbon Cycling

Source Dataset Sampling Location
Location NameLake Croche, Canada
CoordinatesLat. (o)46.8319Long. (o)-72.5Alt. (m)Depth (m)2
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F027756Metagenome / Metatranscriptome193N
F030670Metagenome / Metatranscriptome184Y
F034827Metagenome / Metatranscriptome173Y
F064403Metagenome / Metatranscriptome128N
F078229Metagenome / Metatranscriptome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0209085_10088781F034827N/AMKYNITSQDKEALTEFDQIKEGEVFSFFTPESTDRGNHAIYMKIRVPNTTSVNIVDLGDGKAYDFSAKKRNSINDPDEKQGNRVYKLNAKINIVVL
Ga0209085_100887810F064403GGAGMINPRAKILSDLKIAYLKEHPITLVDRILGYLNNLTDFQLCQIYSEKYETNPKYMAEQFEFKF
Ga0209085_10088782F078229N/AMSNIKYTYYIEQDKDRDGNYIQSFSVYKTPIIKTIRLKTFKKLSDANDFLEKYESN
Ga0209085_10088783F030670N/AMKVIRYIKELEDEFGESLDKWAVYEEIQKPNYPNANFIDAKILKTFPSPYHARNWMENDGKTN
Ga0209085_10088786F027756GAGMKLKDLIDRKILYLNFPINKYAIQEGKVTEISPAEKCIKINNDWHLISNIRIIELFSEKERPALGFN
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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