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 Ga0187833_10004857

Scaffold Ga0187833_10004857


Overview

Basic Information
Taxon OID3300022225 Open in IMG/M
Scaffold IDGa0187833_10004857 Open in IMG/M
Source Dataset NameMarine microbial and viral communities from oxygen minimum zone, Eastern Pacific Ocean - ETNP2014_SV_400_PacBio MetaG (Illumina Assembly)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)12952
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)19 (90.48%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
unclassified Hyphomonas → Hyphomonas sp.(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Oceanic → Unclassified → Seawater → Microbial And Viral Regulation Of Community Carbon Cycling Across Diverse Low-Oxygen Zones

Source Dataset Sampling Location
Location NamePacific Ocean: Eastern Tropical North Pacific
CoordinatesLat. (o)20.3333Long. (o)-107.0Alt. (m)Depth (m)400
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F035492Metagenome172N
F048573Metagenome148Y
F077816Metagenome117N

Sequences

Protein IDFamilyRBSSequence
Ga0187833_1000485711F035492AGGAGMADVGAILESKNSQDSWYDPTQDFSGPMPEGEYKAHVKSLNIKRNVVVKGKFLSDIYEVIFTVADENKDMEYQDDKGEPLNGAAFIGRDFRSKGFFRFKKPNKNEYPNLSENMGSNRSYMELVNSFGLGMEEVDGKFYLPELDSSDIEGLPVIAKLYHDTWVNSDGEEKITPKASAIFNWEEGERKEEDLPF
Ga0187833_1000485717F048573AGGAMRLSRDKITLSLIDDVLESISKYFPIDDLDKFSFLKNIEDATDVVVRNIIRQYTQERFYKRGLGIKYLIGMIKTGHSTYGLNKEYERKSLDRIPPKID
Ga0187833_100048576F077816AGGAGMKKKKKAVFVGVADKIQIKSKSYVMKMLYKRAKKNPFMADKTYEEYLEYIKSQVKLLEGIEIKADTEEEMYNSLKSLGWLKEISVLAVYIITANYGIA
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