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 Ga0102861_1000085

Scaffold Ga0102861_1000085


Overview

Basic Information
Taxon OID3300007544 Open in IMG/M
Scaffold IDGa0102861_1000085 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1449B-3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)24804
Total Scaffold Genes31 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (45.16%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
Not Available(Source: )

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2327Long. (o)-123.9168Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000973Metagenome / Metatranscriptome817Y
F004130Metagenome / Metatranscriptome451Y
F044462Metagenome / Metatranscriptome154Y
F073110Metagenome / Metatranscriptome120Y

Sequences

Protein IDFamilyRBSSequence
Ga0102861_100008518F073110GGAGVADFGDVVETKYVLSAEQLNASAFGNSTVYYSGSPIVYAPGDVVNLPYTSGELSTMEAVGLAWAAYASGIEPE*
Ga0102861_100008522F044462N/AMILCPKFVKRTLTYLATALALQTVFIPGLKASSNWVGES*
Ga0102861_10000853F000973N/AMSYGIRKGLEDVAQELKGIRNILASMWHSRYSNGETDALCPDAYADEYISTEECGRRLGVSDQTVRNWIAIGRKEPDKGWVEGIHYVNVSPGTHRKAVLRIPWNQLVQSFAKNRDLVPSDLRSRPHMYKSTNQFLE*
Ga0102861_10000859F004130N/AMHSAAGFLDSFVQDELDCRCLTEEDFGAPLDNEENDVPLYDMYNRGLTLCEQGLERNPLNLEGARLGTTGYIPSMEQGMSMGASPRPKTLVLELQGPGESEKLLSAKRRGLLR*
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