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 Ga0255074_1012773

Scaffold Ga0255074_1012773


Overview

Basic Information
Taxon OID3300027121 Open in IMG/M
Scaffold IDGa0255074_1012773 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Columbia River, Oregon, United States - Colum_Yuk_RepC_8h
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1105
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)46.1812Long. (o)-123.1834Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002489Metagenome / Metatranscriptome554Y
F021111Metagenome / Metatranscriptome220Y
F044483Metagenome / Metatranscriptome154Y

Sequences

Protein IDFamilyRBSSequence
Ga0255074_10127732F044483AGGMKKLYLDQIAYKMNRAEKTTYEDVSKSTEALKWMVEKVESYLNKCLNVEDGQCNLTWKHEDCKVLMDILYDLTEDVKYKESTWRFDPKQEHLWD
Ga0255074_10127733F002489AGGMENEQPQNLEDNLPMVNYIMLHRIYDLLTLIANKLVGPEDVSKMVQYHDQGFLLGPAPSFTPQGEDEETIS
Ga0255074_10127734F021111GGAMEKSKEPSIQINTDGGTIKETDQMGREKFWEDLGRPDDGK
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