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 Ga0214544_1016987

Scaffold Ga0214544_1016987


Overview

Basic Information
Taxon OID3300021320 Open in IMG/M
Scaffold IDGa0214544_1016987 Open in IMG/M
Source Dataset NameRoot nodule microbial communities from cowpea collected in UCLA plant growth center, Los Angeles, California, USA - CNSS3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6753
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (25.00%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (33.33%)
Associated Families4

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 NameUSA: California
CoordinatesLat. (o)34.06Long. (o)-118.44Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000010Metagenome7424Y
F000305Metagenome1333Y
F002932Metagenome519Y
F009316Metagenome319Y

Sequences

Protein IDFamilyRBSSequence
Ga0214544_10169871F000010N/AVKEVLCDIAPMDSCHLLLGWAWPHFKTLHLDKHSLYLRHEGHQKKYKFMTPRQVSKDQRRLKEKTDEEIVEQEVI
Ga0214544_10169872F000305AGGAVNETQQRPCLKRKLVRSALLCIWSVDKKQIPQTQCMELFIVTYQGGVLLPRNMIDGLQPLESKKYQVEFDPGRRELVSTCEKIKLLHKIVINLH
Ga0214544_10169873F000010N/AVKEVLCDIAPMDSCHLLLGWAWLRFKTLHLDKRSLYLRHEGHQKKYKFMTPRQVSKDQRRLKEETEEERIEQEVI
Ga0214544_10169874F002932N/AMELFIVTYQGGVLLPRNVIDGLQPLESNKYQVEFDPGRRESVSTCEKIKVLQKIIINLH
Ga0214544_10169877F000305AGGAVNETHQLLCLKRKLVHSDLLCIWSIDKKQIRQTQCMELFIVTYQGGVLLPRNVIDGLQPLESNKYQVEFDPGRRELVSTCEKIKVLHNIIINLH
Ga0214544_10169878F009316N/ATFHLDQAWIKFSTWQCVKEVLCDIAPMDSCHLLLGWAWLRFKSLHLDERSLYLRHEGHQK
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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