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 Ga0070744_10001868

Scaffold Ga0070744_10001868


Overview

Basic Information
Taxon OID3300006484 Open in IMG/M
Scaffold IDGa0070744_10001868 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary, USA - metaG S.535
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6355
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (55.56%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
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?
F011394Metagenome / Metatranscriptome291Y
F014140Metagenome / Metatranscriptome265Y
F042904Metagenome / Metatranscriptome157Y
F072349Metagenome / Metatranscriptome121Y
F105192Metagenome / Metatranscriptome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0070744_1000186810F072349AGGMEKVLCYSCNKSKNELSAKKSSLLAVNLLLCQSCTDNKLEPRWIVILAGRQYGSEHVKEHIAKKKYIGLDITASELLI*
Ga0070744_1000186812F011394AGGAMFIDKNKDHFKYGVNEWTGEPNKPVFYNKEMALKVRELKSPAPDLEMDIVKYPDFLAIRLYENNFAQYDGSMRVRVIEYIEMVKNILQSYGVRVELEGKPGGKTK*
Ga0070744_1000186817F014140N/AMNKYRIKLDIEVEVEAFNTEDANEYIHDIFNIDDEIKKINVVKISQINH*
Ga0070744_100018684F042904N/AMAELTLMDEIVGEVAEGLYNKWVSAMPDDEKNQQAFSAMSKNAHETTLFVIQDFMNRFNAAAEELKDK*
Ga0070744_100018689F105192N/AMNISITQILITLFAASISGVFTAWINSRRVKKDKVAQIADKAHDQLLIEIKDLQIKLYKLEKDLNEWKDKYFEALQELIQVKAELEGTMLKLTHIEMHEDLHENL*
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Institute for Fundamental Biomedical Research
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