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 Ga0208089_1000459

Scaffold Ga0208089_1000459


Overview

Basic Information
Taxon OID3300020543 Open in IMG/M
Scaffold IDGa0208089_1000459 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 29JUN2012 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)10503
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (22.22%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Associated Families5

Taxonomy
Not Available(Source: )

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?
F001964Metagenome610Y
F002227Metagenome580Y
F005388Metagenome / Metatranscriptome402N
F010673Metagenome300Y
F029798Metagenome / Metatranscriptome187N

Sequences

Protein IDFamilyRBSSequence
Ga0208089_100045913F010673N/AMNPKLIPILERIIARDTILQSFHADNLPQSALAYVRALYLNDNFLWLTPEEQDLLETLPPFADNISESFREGSGGDASIYHLFDDGSLWIKTNAYQQVWADTRDFAVESILPLMRLDRMDAELLREIGMDDHIDEVRDDFFGAFAHVLHLTCGIAYCDAREHWGAWARQLSDGEREKAELGGAKSGHAEGLRFASEYTVNA
Ga0208089_100045916F002227N/AMKLTIQSRDNAQTIVDLFNAIITGEVEERGATPLSIYDDDRHICSLTDKLGNQILELIIEREAGDKLCPGTPDSETV
Ga0208089_100045918F001964GGAGGMIRNQFTPPKFKVQLVGAIGWSDLKERVVSHRMVEFPTRKEAEKAAKELNPGEYAQGRIRVVPTTWPEDYDVYPVVERVSEKPKSVS
Ga0208089_10004592F029798N/AMATISCAEAANLIAEAQGASCKSPRERNLLEIGLLWEAATLGGTADITADNTVITADSTIITADMTEFL
Ga0208089_10004596F005388N/AMACPNVFNAFAVATESLAQDVYKRASYRSMWLNMIERGEYPQGTGLTQTSFTTTSIEPTAAEEWSAITLASGENGGACDVTYSEVPVGYNAVTWSPERFALKGPLLCKDDLTFDHRVEAFLRVYLEKLSIRAQRSWETRYQNTFAKFAIKAVADSSFTQVETIPSGVNEFPWIQTGSAGQALNQSTSELTQEMLDVAAATLIRNGATNPDSSGFISYSSDGPIFPLYIGLEASQRIAQNNPAFREDLRQADMGSGSGAELLKRIGANRVIKNFRHVPNLFPPRFTYAGGKYTLVQPFTSSSGTKGTVFSVNSSWVTAPFEAAFIVTPYVFKSHIVRPVNRVGDLSWMPTNYMGEWQWVTGAYKLDVDCADPLEKKGQHYAEFVHASEPVFTNQGMTIIFRRCTGALTTVICS

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