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 Ga0068471_1053970

Scaffold Ga0068471_1053970


Overview

Basic Information
Taxon OID3300006310 Open in IMG/M
Scaffold IDGa0068471_1053970 Open in IMG/M
Source Dataset NameMarine microbial communities from North Pacific Subtropical Gyre, Station ALOHA - HOT229_3_0500m
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterUniversity of Hawaii
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)16623
Total Scaffold Genes51 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)35 (68.63%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Pelagibacterales → Pelagibacteraceae → Candidatus Pelagibacter → unclassified Candidatus Pelagibacter → Candidatus Pelagibacter sp. TMED197(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Oceanic → Aphotic Zone → Marine → Marine Microbial Communities From The North Pacific Subtropical Gyre, Aloha Station

Source Dataset Sampling Location
Location NamePacific Ocean
CoordinatesLat. (o)22.75Long. (o)-158.0Alt. (m)Depth (m)500
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005071Metagenome413Y
F023368Metagenome / Metatranscriptome210Y
F084348Metagenome / Metatranscriptome112Y
F096041Metagenome105Y

Sequences

Protein IDFamilyRBSSequence
Ga0068471_105397013F023368AGGAGGMHKYSKETTKYKDVPNDAQVLTTLDKYDSNETENLGMWLAHLSMPQMCASWVSEDTFNSLLERYKIDITSYVKDDERITTSIKDEVRSELFYLINKDKYKKRNLIKALRNKFPDVNSGVICRMIKKYLSLRVLEIDRTYKTKPFVIKGKYYIN*
Ga0068471_105397027F096041N/AMNKNKEYIYITRTMKINIPALLCQDAVDKILSMKKQDLIPKEIGTLYTRCKVKERGKNAYRL*
Ga0068471_105397043F005071GGAGGMAQLNTKEKCTLRDLIKEEIKSLDKEDGGYGQYKYDEYEYCTFLLKLGRKLKLDIQQKIKAKKLYI*
Ga0068471_105397051F084348GAGGMIRRNSSNIPFGYKLSEDNKTLEKVDKELSSLAEMKDGVKSGAFSLRG
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
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