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 Ga0209589_1042324

Scaffold Ga0209589_1042324


Overview

Basic Information
Taxon OID3300027357 Open in IMG/M
Scaffold IDGa0209589_1042324 Open in IMG/M
Source Dataset NameRoot nodule microbial communities of legume samples collected from California USA - Cow pea white BW (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1451
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
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?
F000010Metagenome7424Y
F000029Metagenome5053Y

Sequences

Protein IDFamilyRBSSequence
Ga0209589_10423241F000029N/AVEKFQLPTSFHPNQVRIKFITEQFVKEVLCDIAPTNSCHLLLRWAWLHFKTLNLDERSLYLRHEGHEMKLKFMTPRQ
Ga0209589_10423242F000029N/AVAKVQLPTSFHPNQVRIKFIIGQCVKEVLCDLAPTNSCHLLLRWAWLHFKTLNLDECSLYLRHEGHEMKLKFMTPRQANKDQHRLKEKIEKEEI
Ga0209589_10423243F000029N/AVEKFQLPTSFHPNQVRIKFITEQFVKEVLCDIAPTNSCHLLLRWAWLHFKTLNLDERSLYLRHEGDEMKLKFMTPRQASKDQHRLKEKIEKEEI
Ga0209589_10423244F000010N/ATNSCHLLLRWAWLHFKTLNLDERSLYLRHEGHEMKLKFMTPRQANKDQHRLKEKIEKEEI
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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