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_1001111

Scaffold Ga0209535_1001111


Overview

Basic Information
Taxon OID3300025120 Open in IMG/M
Scaffold IDGa0209535_1001111 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)18491
Total Scaffold Genes35 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)21 (60.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(Source: UniRef50)

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?
F000413Metagenome / Metatranscriptome1169Y
F002182Metagenome / Metatranscriptome586Y
F003920Metagenome / Metatranscriptome462Y
F028002Metagenome / Metatranscriptome193Y
F077946Metagenome117N

Sequences

Protein IDFamilyRBSSequence
Ga0209535_100111112F028002AGGAGGMNKIIKEVKKHKKAMIGVAVIVLIFAWMLVSGDTTPVDAQ
Ga0209535_10011112F003920N/AMLVRTVILYAVMSVCAVAFHEHTYAVWELKEDLQIRIMNLWELLQQLEYVDPDQRIMVYEEITHIRSEIQRIVDLLIEHDQQQHP
Ga0209535_100111121F000413AGAAGLKQFKENIPPALAETMLLDESKLVKYLWKHKALEFRYPKHKIRLDLYADEKYLMMGKLKYPTMFGNRKRMGFMELYLVHKINQRMIKAKGST
Ga0209535_100111134F077946N/AMVYESISGLVRINFQKRCLFIQASLLVFINIHMAHLHNNWNWKDIRYIDPDTEVTCSGGLDGKPEHKPTHMVMGINDVVLVCPICDAIYGNEERMNGTGVQAQMVEAERRKEMNNKKSLLKIDPSQRINKK
Ga0209535_10011114F002182AGGAMIYTDQEHEWLSKPKKKRVSNQTPDGSAPVKKDMRKHDWAITTTIEVDGKQYVVPVQV
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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