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 Ga0102854_1004636

Scaffold Ga0102854_1004636


Overview

Basic Information
Taxon OID3300009058 Open in IMG/M
Scaffold IDGa0102854_1004636 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1370A-02
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3996
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (55.56%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

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

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F011629Metagenome / Metatranscriptome289N
F036692Metagenome169Y
F047991Metagenome149N
F069439Metagenome / Metatranscriptome124N

Sequences

Protein IDFamilyRBSSequence
Ga0102854_10046361F047991AGGAGMQTQNLVATNNSFSSVHTQSVLKQFKKRHKFAKQQQLSKHVTCTSIYTDDVDVCFMFNVVHNNTTYVVDVYANYNNNFVSGNVYNCSCTKLATQILKQHFNLKVFFTESYICTSTKSAEI
Ga0102854_10046362F069439N/ALQKIQNTNFTIYTNKNFKNSIFIKTNAKNNLTYMCSSIEKVALCLQAHNLKNATVRILTKRFNNVCAKKLAQAAVIRIANA*
Ga0102854_10046366F011629GAGGMLNTTQVKELVKQRFGGSLKQVYLNKCYSNKTEVADKRNMAFAVDGDAYKGVDLTALAQEIGCKRIKLHAAFLRGMRSGCWLRLQHVNYNK*
Ga0102854_10046369F036692N/AMHRGATNMQNTFYVLQLQGTGDDEYAFENAGVFTTQQKATEKLAYINAEYDVLVFTLNENARIETHTVDA*
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