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 Ga0075426_10020288

Scaffold Ga0075426_10020288


Overview

Basic Information
Taxon OID3300006903 Open in IMG/M
Scaffold IDGa0075426_10020288 Open in IMG/M
Source Dataset NamePopulus root and rhizosphere microbial communities from Tennessee, USA - Soil MetaG P. TD hybrid SBSTD5
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4749
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (88.89%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameUSA: Tennessee
CoordinatesLat. (o)35.8444Long. (o)-83.9599Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F026411Metagenome / Metatranscriptome198Y
F027294Metagenome / Metatranscriptome195Y
F041398Metagenome / Metatranscriptome160Y
F080432Metagenome115Y

Sequences

Protein IDFamilyRBSSequence
Ga0075426_100202884F026411AGGMKGQEQKDSAALMGTSPAMECRAEFIFYARNQSRKLGSVEVLGDYACDFRRPDWAHRWTDWNSGRNHYLNLFLCAKHARELGLL*
Ga0075426_100202885F027294GGAGGMRVFRGFAIALMLALISLGIFILYNSMARRSAAAADSVVAGAVLFSLALTLLYYISRPTIK*
Ga0075426_100202886F080432AGGAGGVDIQKGEQWRCQNPVCRSEILVTTSSRTQGGSNPRCSCGEIMKKPYAPPGLRSFESEVEARVKLEASRN*
Ga0075426_100202888F041398AGGAGMTKSRTQVAFAMVVFSAVVAVFSGVVAVPFLNAGKHSLPAVPSNGVVTLIADGGDPQPPPTPLPWLV*
 ⦗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.