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_10201621

Scaffold Ga0244775_10201621


Overview

Basic Information
Taxon OID3300024346 Open in IMG/M
Scaffold IDGa0244775_10201621 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)1669
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (87.50%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Associated Families6

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?
F000441Metagenome / Metatranscriptome1136Y
F001019Metagenome / Metatranscriptome804Y
F001460Metagenome / Metatranscriptome690Y
F001781Metagenome / Metatranscriptome635Y
F007644Metagenome / Metatranscriptome347Y
F034924Metagenome / Metatranscriptome173Y

Sequences

Protein IDFamilyRBSSequence
Ga0244775_102016211F001460N/AMLGYTEEDLNRMINAVHDAKLFYLRYPSDLMDKTELRNDLEMAVSFMQGLWAEGYFD
Ga0244775_102016212F007644GGAGGLTKSSRFIEYMKLHLISLEQDLEKNPESINVIDIPGQIEATRHLLSVALGIMAESERI
Ga0244775_102016214F001781GGAGMKPQDKDKLNECLSILDTTDLGLSLVWLWTWSTIKNFMGDETFIMKKTEDEMWDCLCEAVEAGHGFSLEYGAEQHNEDVMEWMLNRDYMVDSMFEDEEDEDEDE
Ga0244775_102016215F000441AGGAGGMKMSDQYINDQLNKAQQLLWGGSETENIEAHNIISKLIKDRIEQVGDRG
Ga0244775_102016216F001019AGGMTHYGASLEILEVAYEVSPGGVRTFEVYDKGDNYDIMDMPIYETESLTKAVEYCYNLGKDFIVRTYAEWEMRELLADL
Ga0244775_102016217F034924GAGGLPIYRVFGTRYQNYYTIVSADDEYQAAEIANARPSIDWEEIPIDDEIEATDVFLDEDTEIDLQLNM
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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