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 Ga0070713_100006342

Scaffold Ga0070713_100006342


Overview

Basic Information
Taxon OID3300005436 Open in IMG/M
Scaffold IDGa0070713_100006342 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L8-2 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8188
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → unclassified Rhodospirillales → Rhodospirillales bacterium URHD0088(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan: Kellogg Biological Station
CoordinatesLat. (o)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F030260Metagenome / Metatranscriptome186Y
F048452Metagenome148Y

Sequences

Protein IDFamilyRBSSequence
Ga0070713_1000063421F048452GGAGGMHIVELQYSNDAAAKIVATIRKWLDSGKAQPAIRYSLLGAATVLRVDFELEGEAHAFAQAFGGRVVR*
Ga0070713_1000063422F030260AGGGGGMGTILVETGSIWRRIFLLDPVTASEEQKAGLVRVLQSRYHKVCAGELYRIDGQPLRAPTEAITLDTGMVLIGMSECLRSSSEAEKALRDIFMMFFAALGISREICRKIDRSELDLRQQLKMLSLWTRCRQNAPLMPVLNFAAALLCRGEPQLHETRPQTIARMASALMPDAWTIYSKTVSFFGYTVDEPRIPFLESHRRSPPGQGAREAEPVHERLSA*
 ⦗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.