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 Ga0208133_1001360

Scaffold Ga0208133_1001360


Overview

Basic Information
Taxon OID3300027631 Open in IMG/M
Scaffold IDGa0208133_1001360 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary, USA - metaG S.535 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8549
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (64.71%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Archaea → Euryarchaeota → Methanomada group → Methanobacteria → Methanobacteriales → Methanobacteriaceae → Methanobrevibacter → unclassified Methanobrevibacter → Methanobrevibacter sp.(Source: UniRef50)

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?
F018175Metagenome236Y
F043400Metagenome / Metatranscriptome156N

Sequences

Protein IDFamilyRBSSequence
Ga0208133_10013601F043400AGGAGMFNFFNKKLPTDFDQVKDKGREIGEIFFKPTQELQQDFNLIDKVNKSRFEDFQVSSFASFFEKLELIPTVDLGDVNLKIRTTNPSAPIDADLCQVWMRRTYTNPTTGQTTEQWINWVPNDDAAKKYFKFSLFSGETQTFNFDISTFDVGKYDSFRFIFFTNHWTVLADQMAENVSFEITTKQKRVKAPFVEILADKIQDPGPDVKLHIPYVIKMPPKTFTTWGGWFLLGKGGSLFQQPWIAYAKKNGSDVVPDGATKVAEGPDPYWYSEGELVFDYPSVSGIHNLQFGLF
Ga0208133_10013602F018175N/AMENLPKNQKEYYHNKVREFEKRTGKSMNVKGVSKIYDCNIENVEYNTPAAMNMMQKHGCYIYHSLLAEEDPRSNGTNWQMYAFAYVNGKVYKYYYETKQWGAEVKDFTHHQNKDKTWKAAKLDKANFPYSLDPGEDYLPYAVENKHIGSNFDDFLKINNIELKRDINWAIKMLDAGKMMSREGNPSLTLFPKKYDHAESTITTEDLFAEDWVVVQSKSFKNVLDDLNAGKTIRRKSWPPDWGVGKYARYGKIIYLDLIADDWEVEDVVAEVDKIQKDLRDGKA
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