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_10165340

Scaffold Ga0244775_10165340


Overview

Basic Information
Taxon OID3300024346 Open in IMG/M
Scaffold IDGa0244775_10165340 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)1864
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (57.14%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Nitrosomonadales → Methylophilaceae → unclassified Methylophilaceae → Methylophilaceae bacterium(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?
F000473Metagenome / Metatranscriptome1097Y
F000671Metagenome / Metatranscriptome945Y
F002060Metagenome / Metatranscriptome597Y
F012975Metagenome / Metatranscriptome275Y
F074876Metagenome / Metatranscriptome119Y

Sequences

Protein IDFamilyRBSSequence
Ga0244775_101653401F002060N/AMNLNYTAIIIAISAAILSGMGTAIIAGIRDSKKEKVRQREREQDHLKLELKDLKIKLYQVERDLTEWKDKYYSAIQELIGVKADLEETLIRLSLIDMEFHPDQD
Ga0244775_101653402F000671GAGGMEKILCYSCNKSKNKLNVKKSILLPINLFMCETCITNKMEPRWVVILAGRSMGPEHVREFVLKKRYIGNEISASELLI
Ga0244775_101653403F074876N/AVKEYYEIINIVYIHDLRLYGTIEKMGTYASMVKYTKDGIDYKELIENDEFAIIDEIVFEHVEEEK
Ga0244775_101653404F000473AGGAGMASNFFDDKHFKYGINQFTGEPNKPVFYNETMAKKIKEIKAPVIGLQMDIAKYPDFLAIKLYEDNFIQYQGIKKEMVIDYVLKVRKVIESFGVRCELVGVPSERVL
Ga0244775_101653406F012975AGGAVLNLTLKGVEVFIEKSKTKNQESYWDNYDLMIWKQDTSGFTNIKGLFRKDTWGVAERISANNEGIWKLPAKYVKHFK
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