NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0063356_100113863

Scaffold Ga0063356_100113863


Overview

Basic Information
Taxon OID3300004463 Open in IMG/M
Scaffold IDGa0063356_100113863 Open in IMG/M
Source Dataset NameCombined assembly of Arabidopsis thaliana microbial communities
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2979
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Arabidopsis Thaliana Rhizosphere → Arabidopsis Thaliana Rhizosphere Microbial Communities From The Joint Genome Institute, Usa, That Affect Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: Walnut Creek, California
CoordinatesLat. (o)37.931388Long. (o)-122.021761Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006137Metagenome / Metatranscriptome380Y
F022781Metagenome / Metatranscriptome213Y

Sequences

Protein IDFamilyRBSSequence
Ga0063356_1001138631F022781AGGAGMTAINRREFFSLLGGATAMSMAIPAIASSTDNAAAALTSLYVKGLVMVDLGDPDILRLGFPKAPGHSATLAVLPQNGAKRVMPIKGSGAVEAKPVTSADTKVLVPELIRMKEFYGDDVKSHIDKCPGVISIPRNTIHSIKATELTSARYTFVRTDSGEEVTTFRPRQVADAIKIELSSAGTLKLDGGKVNIPLESARELRVEYTAESVGSADPFADHFHHYFPYIERPAALDFDVVPKKVGAASAPAPHAGHHFMMIDAFILCSLVAVP*
Ga0063356_1001138633F006137GAGGMSAPDLVRECGERLTDRELWRQFQERFQGLIFIYVMRSLRLRLIQEDVSGVVPDLAQEVYVKLVQHDGRVLRSFKGSSEFSVRAFLAKISASVVHDYQRRATTEKRSAQVIPIDYARAAESNRKNTADAPQVDFSQLGSILSLIDVERIVESDVDQKNARRNALIFQLHYINGLECAEIASFPVFGLTASGVQAILARLRKRMQA*
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.