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_1006880

Scaffold Ga0247843_1006880


Overview

Basic Information
Taxon OID3300028569 Open in IMG/M
Scaffold IDGa0247843_1006880 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)14459
Total Scaffold Genes35 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)31 (88.57%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (85.71%)
Associated Families7

Taxonomy
Not Available(Source: )

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?
F003456Metagenome / Metatranscriptome485Y
F003784Metagenome468Y
F009331Metagenome / Metatranscriptome319Y
F014590Metagenome261Y
F016784Metagenome / Metatranscriptome244Y
F023834Metagenome208Y
F068766Metagenome124N

Sequences

Protein IDFamilyRBSSequence
Ga0247843_100688010F023834AGGAGGMSKPTVEYWQAKADLCRDLALIQIQDEETEKEAGMNLMRMTYALSMVDTFNEGGGEDE
Ga0247843_100688012F068766AGGAGGVSENVVGFHPKNKLVNFYEIATEEGNAVWGGEDPHSAVQWLRQSPLNSRLLVSCWEAGEEDARLIIEPIDITKIVYAVLAGAQ
Ga0247843_100688015F014590GGAGGVRTRHLQLVTHEHSATTNSRSGALSPFGPVRAGLTTSQTTSEARLTELLNSLENVVENLNYKSFTVYDTLVIATENLRVALSNIATDEAGTDTV
Ga0247843_100688017F003784GGAGGMYDNDRKRVGHNLTDFAAYGLSHLAPGQDEPDNTDTPTTNPLVDHAAVTGYRALGVSTEDLTSFIESFASLRAMRVKGVGHDQYSHAQGQKFEAFTTSDTIRELIEELADASNYIDFLAIKLLNIQHTIDQVLPDCD
Ga0247843_100688019F009331AGGAGMICENCIKAGEENTLTHYKRSSNWHEKCNDKGCVCQHKTGPGYVKRAGTKVPLMQTQSP
Ga0247843_100688022F003456N/AMANPNGRKGSQFETDVMKWLRKCGAMAERLTKAGAKDEGDIVTVIAGETYILELKNRATLSLPEFWREAEVEALNYASARGLGEVPLHYVIVKRRNSGIENAWVIQDLAQWLKEKQ
Ga0247843_100688027F016784GGAGMEFNTFDYVEPEFKNVIATGEYAAHYWFEQGWKACRLAFLLHKQAEEAGAFRV
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Biomedical Sciences Research Center "Alexander Fleming"
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