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 Ga0173481_10007875

Scaffold Ga0173481_10007875


Overview

Basic Information
Taxon OID3300019356 Open in IMG/M
Scaffold IDGa0173481_10007875 Open in IMG/M
Source Dataset NameSoil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-S073-202C-2 (version 2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2931
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Soil Microbial Communities From Arlington Agricultural Research Station In Wisconsin And Kellogg Biological Station In Michigan, Replicating The Bioenergy Cropping Systems Trials (Bcsts)

Source Dataset Sampling Location
Location NameUSA: Wisconsin
CoordinatesLat. (o)43.3Long. (o)-89.38Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F033153Metagenome178Y
F056127Metagenome138N
F080414Metagenome / Metatranscriptome115Y
F103529Metagenome / Metatranscriptome101N

Sequences

Protein IDFamilyRBSSequence
Ga0173481_100078752F103529GAGMRLSKAHQGQHFGQEAKRQARYRGYDILMQRLDLCWMVTIKPSRSELPVFKRYAFQTATQSEREALALAKRRIDQALETSKLTYSATRH
Ga0173481_100078754F080414GAGGVSNTSQASQRSTEGHPSTLHAFFLAAKESGDTEFELQLVSSLKGRIVFCISPRGYSEMRATFDVRGNTVRVAPGEASSRVVVTRKPPAT
Ga0173481_100078755F033153AGGMRRFLSFLTATAILLAGLALAGFEIVHADGVRPFVLFGALVMVVISGAWLLKEFVLPPWR
Ga0173481_100078756F056127N/AMTENKDHDKLFADLDALSEQQIEVGLAAGVWNEQVRPLVQHYLYDLKLKRVEAAADRLTEMEKAVRLAVGEAIKAKTRANEALIIGVGAMLAAMAGALIAFLALRKYGFQPPW
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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