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_1025350

Scaffold Ga0209535_1025350


Overview

Basic Information
Taxon OID3300025120 Open in IMG/M
Scaffold IDGa0209535_1025350 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)2905
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → Viruses(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?
F005611Metagenome395Y
F075434Metagenome119Y
F087898Metagenome110N

Sequences

Protein IDFamilyRBSSequence
Ga0209535_10253504F075434AGGAMIKYVATIKEWRDRINGNTYFSAQIDDIEKDVTYPIQFQYGYGSQAEYTCKQFLGLKGFNSELPIKFITIPNCKQKDVKQWGNVA
Ga0209535_10253505F087898AGGMKAEIIARIIMILTGFILAMLGAITFLHAGDHKVLGLLISFAGVMSMFAALPDNA
Ga0209535_10253508F005611GAGGMPKYKIRAEETIYAIYETEINADNKKQAEEFANKISVADYDNTDLSNSAGDFIIEEIEEI
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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