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 Ga0209535_1000692

Scaffold Ga0209535_1000692


Overview

Basic Information
Taxon OID3300025120 Open in IMG/M
Scaffold IDGa0209535_1000692 Open in IMG/M
Source Dataset NameMarine viral communities from the Pacific Ocean - LP-28 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)23537
Total Scaffold Genes50 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)33 (66.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Oceanic → Unclassified → Marine → Marine Viral Communities From The Subarctic Pacific Ocean And The Gulf Of Mexico

Source Dataset Sampling Location
Location NamePacific Ocean
CoordinatesLat. (o)48.9699Long. (o)-130.6666Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F007835Metagenome / Metatranscriptome344Y
F078591Metagenome116Y
F100959Metagenome102N

Sequences

Protein IDFamilyRBSSequence
Ga0209535_100069213F100959N/AMNIGKSGNTNREIRLKLLIKRLDNVNKVVYNYPTMSMFNQSKLIKKLNKNLYYNNTKENTLCQK
Ga0209535_100069221F007835GGAMPFDPKCLRNKREEFVLQKIEYYKVTEYMGRSDWKRYYFDTYRDAVKVFKKLKQTKRKVLIYACRDDKLGEISTGLNDRFSNE
Ga0209535_100069223F078591AGGMALFRGVCSIESCTKCQYMGRSAAQNLVKSTIFRGLTFKSKPDRI
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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