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 Ga0335001_0002310

Scaffold Ga0335001_0002310


Overview

Basic Information
Taxon OID3300034064 Open in IMG/M
Scaffold IDGa0335001_0002310 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME14Nov2013-rr0054
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)11539
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (15.38%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Lake Mendota, Crystal Bog Lake, And Trout Bog Lake In Wisconsin, United States

Source Dataset Sampling Location
Location NameUSA: Wisconsin
CoordinatesLat. (o)43.0995Long. (o)-89.4045Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005293Metagenome / Metatranscriptome405Y
F010317Metagenome / Metatranscriptome305Y
F019468Metagenome / Metatranscriptome229N
F067662Metagenome / Metatranscriptome125N

Sequences

Protein IDFamilyRBSSequence
Ga0335001_0002310_2064_2357F010317GGAMKKIYIEKLAEVPGGLPARSMDEHIMGKPNDNYSSIPIEYNLEGALSYDIEVGKSVVVGRTRRNGVEAYGVFSTSTVTEVGNNYFKTKNSVYSYKFL
Ga0335001_0002310_2913_3440F019468N/AMIIEKTYKLTIKDTAYFLTEEEVTKLYEQCRKALNIDNANPYFPNYPPGVRKFDDDKTTPLNPTTPSIPYPYDTYPWYAPGTGIPYWTGPTTTCGTINAGEGNCVKDTNWQPNLCNTVKSSNGINFLSDDMETIKENDKWRSSVQQALDKLKDKKIDTTKTTLTDGMLYSTKFGE
Ga0335001_0002310_3858_4160F005293N/AMVNDSVPFVPTRDDLIGYISDTYKEINGFRPRPVWSELTYEQLDKWGRELAAEVVTYRKQEVVRNRIARGLRRAQQRAWVEKKRSYFTGSNFTIGNVVNF
Ga0335001_0002310_5280_5582F067662N/AMIPPSKTETIKTIAELKAYFVEVDELNRYNAVTAVRTTKEIATELLLDNVSIIRGGKIRYFQIKHIGLKVYAVKLRDNNRVNTILVENWEYRIINNTDHF
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