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 Ga0207942_1001606

Scaffold Ga0207942_1001606


Overview

Basic Information
Taxon OID3300020549 Open in IMG/M
Scaffold IDGa0207942_1001606 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 12OCT2012 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)4220
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (69.23%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Nitrosomonadales → Methylophilaceae → unclassified Methylophilaceae → Methylophilaceae bacterium(Source: UniRef50)

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?
F000671Metagenome / Metatranscriptome945Y
F011394Metagenome / Metatranscriptome291Y
F014140Metagenome / Metatranscriptome265Y
F066776Metagenome / Metatranscriptome126Y

Sequences

Protein IDFamilyRBSSequence
Ga0207942_100160610F014140N/AMHKYIVKLLVEVEVEAFNLDDATDYIGDIFNIDDEIKKVSISSIKEKK
Ga0207942_10016063F000671GAGGMEKVLCYSCNKTKNQLNLRKSTLLPINLLMCETCITSKFEPRWVIILSGRQYGSESVRDFVIKKRYCGNDITASELLV
Ga0207942_10016066F011394AGGMFIDKNNGKDHFKYGINQWTGEPNKPVFYTKEMAKKLRELKKPTSNLNMDIVKYPEFLAIRLYEDNFKQFDGSMRLRVIEYVEMVKNIIETYGVRCELEGAPGEGKR
Ga0207942_10016068F066776AGGAVGQRNKSGGLTDRNEVLHLTMQGVEIFINRSQTKVQKSFWDNYDLVIWKKDYNGYSDTSGMFHDNQWGKAEKISVNGKGIWKLPKKYVKYFK
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