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 Ga0244775_10351281

Scaffold Ga0244775_10351281


Overview

Basic Information
Taxon OID3300024346 Open in IMG/M
Scaffold IDGa0244775_10351281 Open in IMG/M
Source Dataset NameWhole water sample coassembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1217
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F031492Metagenome182Y
F048305Metagenome148N
F049615Metagenome / Metatranscriptome146N

Sequences

Protein IDFamilyRBSSequence
Ga0244775_103512813F049615AGGAGMTPDTVNLIAELEQRISELSVALELVTEDRDNLRDAGNSLMHELEACRTTLVQAHSDISRLRVYLAQGAEL
Ga0244775_103512814F048305AGGMGMSDYDLHIKGQDFRIAELINETAFQQLAQLKSKIEIAELCVEVARLNSHIQTLETTLATMSGELHALRMDTQ
Ga0244775_103512815F031492GGAMRQFNIGDKVIIDDESGVIESVVLMDGQQPRYDVRYGHTYMVAVDVPEEDIQPWQADEQ
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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