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 Ga0075365_10023796

Scaffold Ga0075365_10023796


Overview

Basic Information
Taxon OID3300006038 Open in IMG/M
Scaffold IDGa0075365_10023796 Open in IMG/M
Source Dataset NamePopulus root and rhizosphere microbial communities from Tennessee, USA - Endosphere MetaG P. deltoides DD176-5
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3856
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Roots → Bulk Soil → Unclassified → Populus Endosphere → Populus Root And Rhizosphere Microbial Communities From Tennessee, Usa

Source Dataset Sampling Location
Location NameUSA: Tennessee
CoordinatesLat. (o)35.8443Long. (o)-83.9607Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F026611Metagenome / Metatranscriptome197N
F035365Metagenome / Metatranscriptome172Y
F053393Metagenome / Metatranscriptome141Y

Sequences

Protein IDFamilyRBSSequence
Ga0075365_100237961F026611N/ATKVAAALIAVTMFTAPVLAQSVAPVSPAPAPQTIKAKSPVKHVKIKKHTVKKVRVGRHHMHVKHVRHAKSGKLAHSARLSAKPAPAPSRTN*
Ga0075365_100237963F035365GGGGGMFLTSAECRTLAEEKLAEADRDKRHRRRLITAAQGWLVLASRLRRLEKTLGNDEVKN*
Ga0075365_100237964F053393GGGGGMAIKALVSADRPVVRIWHPDDPKQYVELQFESQEAANNAVGHLNSALKWASGMEFGEDE*
 ⦗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.