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 Ga0222719_10116315

Scaffold Ga0222719_10116315


Overview

Basic Information
Taxon OID3300021964 Open in IMG/M
Scaffold IDGa0222719_10116315 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_34D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1933
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Pelagibacterales → Pelagibacteraceae → unclassified Pelagibacteraceae → Pelagibacteraceae bacterium TMED287(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)37.495Long. (o)-122.0933Alt. (m)Depth (m)4
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F042637Metagenome / Metatranscriptome158Y
F059370Metagenome / Metatranscriptome134Y

Sequences

Protein IDFamilyRBSSequence
Ga0222719_101163152F059370AGGMIDVYCVNVGKKYTRDFDQRLKESVAQHLTLEHTFTCLTDRPELEYDMPVTHQELRGVFHKLSLFQFTGNCLFFDLDIMINDNIDFLATEFDRLTLVNSSPWKQQSLKEPLKFRITQNTLVNSSIMRWSDERKVFEKFMKHRDLYVRLYSGIDRFIYNEGVKYKYFVGDAISSWQEGVEHNTILLHNQKYV
Ga0222719_101163153F042637N/AMAIFTGKIIEAYFANSENDAVEVIYKDGNKAINHYLKVDYNAQDFKDLISEYSTDKIQESTSARNRNYARQLSDLVDSGIKKRKEITKQKISVEDFVNKILDFDPEDSESREIFFTLKVQIFETKKLKDSNDADYKARLRSAQNPIDLLAAYKGSDD
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