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 Ga0209389_1060277

Scaffold Ga0209389_1060277


Overview

Basic Information
Taxon OID3300027296 Open in IMG/M
Scaffold IDGa0209389_1060277 Open in IMG/M
Source Dataset NameRoot nodule microbial communities of legume samples collected from California, USA - Cow pea red BW (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2358
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (16.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Corynebacteriales → Mycobacteriaceae → Mycobacterium → Mycobacterium tuberculosis complex → Mycobacterium tuberculosis(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Root Nodules → Root Nodule Microbial Communities Of Legume Samples Collected From Usa, Mexico And Botswana

Source Dataset Sampling Location
Location NameCalifornia, USA
CoordinatesLat. (o)34.0722Long. (o)-118.4441Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000029Metagenome5053Y
F009316Metagenome319Y

Sequences

Protein IDFamilyRBSSequence
Ga0209389_10602772F000029N/AVEKLQLPTSFSLNQARIKFSTGQCVKEVLCDIAPTNSCNLVLRWAWLNFKTLNLDERSLYLRHEGHEMKFKFMTPRQAKKNQHTLKEKIEKERIEKEEM
Ga0209389_10602775F000029AGGMFRCIRLRKRQQFVSQRLVEKLQLPTSFYPNQARIKFSTGQCLKEVLCDITPTNSCHLVLRWAWLNFKTLNLDERSLYLRHEGHEMKLEFMTPRQAKKNQHTLKEKIEKERIEK
Ga0209389_10602776F009316N/AMEKLQLPTSFHSNQARITFSTGQCVKEVLCDITPLNSCHLVLRWAWLNFKTLNLDE
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