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_1025749

Scaffold Ga0214544_1025749


Overview

Basic Information
Taxon OID3300021320 Open in IMG/M
Scaffold IDGa0214544_1025749 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)2751
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (50.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
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 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
F007068Metagenome358Y

Sequences

Protein IDFamilyRBSSequence
Ga0214544_10257491F000010GGAVKEVLCDISPTNSCHLLLRLAWLYFKTLNLDKGSLYLRDEGHEMKLKFMTPTQASKDQHRLKEKI
Ga0214544_10257493F000010AGTAGGVQEVLSDIAHTNSCHLLLRLAWLHFKTLNLYKGPLYLRHEGHEMKLKFMTPRQASKDQHRLKEKIEKEIIEKEEI
Ga0214544_10257495F000010GGAVQEVLSDIAHTSSCHLLLRLAWLHFKTLNLDKGPLYLRHEGHEMKLKFMTPRQASKDQHRLKEKIEKEGIEKEEI
Ga0214544_10257498F007068N/AVFNQSHPCLVAFVYESDNIIVSQRLVEKLKLPTSFHSNQARIKYSTAQCVKEVLSDIAPTNSCHLLLRLAWLYFKTPNLDKGSLYLRDEGH
Ga0214544_10257499F000010GGAVQEVLSDIAHTNSCHLLLRLAWLHFKTLNLDKGSLYLRHEGHEMKLKFMTPRQASKDQHRLKEKIEKERIEKEEI
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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