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 Ga0244775_10014706

Scaffold Ga0244775_10014706


Overview

Basic Information
Taxon OID3300024346 Open in IMG/M
Scaffold IDGa0244775_10014706 Open in IMG/M
Source Dataset NameWhole water sample coassembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7289
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)25 (96.15%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F011299Metagenome / Metatranscriptome292Y
F043940Metagenome / Metatranscriptome155Y
F051126Metagenome / Metatranscriptome144Y
F085262Metagenome / Metatranscriptome111Y
F085708Metagenome / Metatranscriptome111Y
F087194Metagenome / Metatranscriptome110Y

Sequences

Protein IDFamilyRBSSequence
Ga0244775_1001470611F011299AGGMMTRKDYVAVAEILKYASDKTHPAVFSKMVNDFAEMFAKDNDRFDVTRFHEASGYHVPKFTSR
Ga0244775_1001470615F051126AGGMSAKAFTIESLLEGKHYRSHSRHDEGTIVYATKRDAIWYGENLEAYAIEVRPTRGIKNFWATIAVRVSD
Ga0244775_1001470620F085708GAGMSTNRILTTLVQLGIGIPALIMLRLVWREIVADFREWANSH
Ga0244775_1001470624F087194AGGMTLDEYKQMVEAQRLASLSIALEALTKSEAIAKEMNK
Ga0244775_100147063F043940AGGMKNRFRVEIYDENKFNDVTIYSEQGVDKEYLTELAFSNRRNFFGDVRAYVYDTLKKTKTTALYLPSEVINYGRTNKLTRDELGL
Ga0244775_100147066F085262AGGAGGMNNLYSILSERHPDGDFNEMDLWEAIAGSEGLELNEIMDGDLTEYL
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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