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 Ga0209634_1016021

Scaffold Ga0209634_1016021


Overview

Basic Information
Taxon OID3300025138 Open in IMG/M
Scaffold IDGa0209634_1016021 Open in IMG/M
Source Dataset NameMarine viral communities from the Pacific Ocean - LP-40 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4317
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (50.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Rhodospirillaceae → unclassified Rhodospirillaceae → Rhodospirillaceae bacterium(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)50.0Long. (o)-145.0Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004629Metagenome430Y
F005038Metagenome / Metatranscriptome414Y
F008915Metagenome / Metatranscriptome326Y
F013234Metagenome273N

Sequences

Protein IDFamilyRBSSequence
Ga0209634_101602112F013234N/AMANIKYNKTIEKTILNRLCNGESIRKICKDPDMVSWATFSQKLKDSDKLQDQYYTCKKIGIEMVIAEAQDKLMDSINTLENSGKMDNSLPFAHLIKEMQSNAKWLSSVLSPVRYGKDTKLTLNGGDKP
Ga0209634_10160212F008915N/AMGFIVDNEITLDLYEMQSASHLGILRCLESKKHKENWGYNYKGSLNDQMAKSISGAMGEVAASKFLGIKFEYHCNVGGVPDLIFKDLKLQVRTQLPKSNNNNSLIIRQKAEQNQFYILVIDEAPKFKILGFVNSTYVLGQEQWKTTFGLDRPFCYSIPPEKLTPINLLKDSTWN
Ga0209634_10160217F004629AGGAMIPNRLTVDQLDNYFQTATYVERYMPSPLNMKNRRTEMFSLIDRLYGIGKDKDSYKGEDKPRMKIRLNGEQLQVYEFCILLLVKASEKDRDIISLRNFPYKRSFRQLKQFFLPSSHEKVRSDYYKALEELMSLYNRKGYKFICK
Ga0209634_10160218F005038AGGAGGMKAKDINIYNIFSATYKRKMFSFIGFGELSLMPKVKKPIRQISNVYQFPIKSYYKHYKT
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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