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_10001273

Scaffold Ga0173481_10001273


Overview

Basic Information
Taxon OID3300019356 Open in IMG/M
Scaffold IDGa0173481_10001273 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)6011
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (93.75%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(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?
F011852Metagenome / Metatranscriptome286Y
F080214Metagenome115N
F082926Metagenome / Metatranscriptome113N
F087420Metagenome / Metatranscriptome110Y

Sequences

Protein IDFamilyRBSSequence
Ga0173481_1000127312F011852N/AMPLVSYFVVMGATLTLALIFISNRIEPLGSPVPTSQIVGLARPYMPEPEQSPYAVTGTNFAAANKPAAARAAAETTARRADSLQQQPAANTEVRRVPRWKHIAQNPIAALMGVH
Ga0173481_1000127314F082926GGAGGMPDISATEQPEQSHIVTWKVISIGTAIVLVVFLFLWL
Ga0173481_100012732F087420GGAGMGPKLGTRAKRSATGVAIALALSALPHTPASAAKPPYGSCVAVTKQEYDSAKKQHMLQTRYTQYVRTGLPGRRQYWYCR
Ga0173481_100012734F080214AGGAMNAANAGPRDPVAMFGMARKESRKSILLRFIEALKESRRREAQRVIATYAHLLADRDTRDDDNQH
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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