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 Ga0208133_1022815

Scaffold Ga0208133_1022815


Overview

Basic Information
Taxon OID3300027631 Open in IMG/M
Scaffold IDGa0208133_1022815 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary, USA - metaG S.535 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1607
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(Source: UniRef50)

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?
F049633Metagenome / Metatranscriptome146Y
F051131Metagenome / Metatranscriptome144N
F073556Metagenome / Metatranscriptome120Y

Sequences

Protein IDFamilyRBSSequence
Ga0208133_10228151F051131N/AYEDVTNRDSRVFEANEDLTESEINDYLEQASQRILTQIRNTAWWREYQRKLAQIVDPNLLPAVNPDYILARTQEFIDLNVYFALYEYVYPSVADFGNPESAEIAKIKFYKDSYNVLFDEVIEAGDWYDFTENGSISTADKMASIVNRVRVR
Ga0208133_10228152F049633GAGMRTELLTYLTAQLTGSILTSQELPWQEGTNPLYIKNPRRVYLDEPYTEQDTLFPTLGSLQINARITVVRWFLSVDAKNRNTDLDSALTILGGAKDITTITGVFTRLFDYTVTIDNDRVIYEGEYRFANLA
Ga0208133_10228154F073556AGGAGMIFDDKTDDELFRSIEAEVAKALSELRCAKKDLEQAEVRMKFALATVHYLKQRYEDMK
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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