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 Ga0247843_1028061

Scaffold Ga0247843_1028061


Overview

Basic Information
Taxon OID3300028569 Open in IMG/M
Scaffold IDGa0247843_1028061 Open in IMG/M
Source Dataset NameFreshwater microbial communities from meromictic Lake La Cruz, Castile-La Mancha, Spain - LaCruzMarch2017_8m
Source Dataset CategoryMetagenome
Source Dataset Use PolicyRestricted
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Note: The use of this dataset is restricted, as per the data usage policy of the Joint Genome Institute (JGI). Utilizing any of the sequences below requires obtaining a license from the dataset's corresponding author(s).


Scaffold Components
Scaffold Length (bps)3961
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (88.89%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Methane Metabolizing Microbial Communities From Different Methane-Rich Environments From Various Locations

Source Dataset Sampling Location
Location NameSpain: Castile-La Mancha
CoordinatesLat. (o)39.9879Long. (o)-1.8737Alt. (m)Depth (m)8
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F010302Metagenome / Metatranscriptome305N
F017131Metagenome242Y
F024955Metagenome203Y
F030063Metagenome186Y

Sequences

Protein IDFamilyRBSSequence
Ga0247843_10280614F017131AGGAGGMAFPGTYNFNYYRGDRYEFVIRPKTANGDAFDLTGYSANFFVANQRGEGKTQYEMQAVVDGSADTVTCTILPGSGEDLVAGTYVYDVQIDSGATLVYTLLTGSITVTDDITGADDS
Ga0247843_10280615F010302AGCAGMVDVLLNTDDVVVIGPPESIDLLVDIGPQGVRGSKFIVGSGEPNALTASGVLFGTTLILNDMYINTAPGENYGYMYQYISQAGANTWVEVLKVSPAIYSSVETIAFTSGAGSITIPISNIVTVSGSPLTASNFNVQFRIEGTNPIASAMEIPALAGAGTNLVINFDAVQYSSGSWSVLTGSKTVHLFISIV
Ga0247843_10280616F024955GAGGMAVENIGSLVPTKIPALIDDANIQDALKAYHYGSYDFDTAETDPAELLNPSIAYTINDLQDQIDDQTALELAARNISSAQNSAPVAANFTAFSATIPNGYIWVDKDAAAPVGYISATSVYTATQPTTGLANGVIWIKKGSNPLEMYVYNGDTSTFNQVI
Ga0247843_10280617F030063AGGVPTSFNYDGKPGYIYNAADDVWYELSGKTDTSGTFEWAGLQTYLSAVTMLESLVAKKGINNYLNPAARDASITSPTAGSICFIRQDGSGNVINQLQYYSGSSWVAFIPAQAGSAGKFLQTDGIITSWSDVPDPTTTSFLTMGG
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