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 Ga0066388_100140608

Scaffold Ga0066388_100140608


Overview

Basic Information
Taxon OID3300005332 Open in IMG/M
Scaffold IDGa0066388_100140608 Open in IMG/M
Source Dataset NameTropical forest soil microbial communities from Panama analyzed to predict greenhouse gas emissions - Panama Soil - Plot 6 (Hybrid Assembly)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2977
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (66.67%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Forest Soil → Tropical Forest Soil → Tropical Forest Soil Microbial Communities From Panama Analyzed To Predict Greenhouse Gas Emissions

Source Dataset Sampling Location
Location NamePanama: Oeste
CoordinatesLat. (o)9.1086Long. (o)-79.8436Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000037Metagenome / Metatranscriptome4230Y
F001448Metagenome / Metatranscriptome692Y
F002001Metagenome / Metatranscriptome606Y
F004216Metagenome / Metatranscriptome448Y

Sequences

Protein IDFamilyRBSSequence
Ga0066388_1001406084F000037GAGMTVLLLKRASASRPSGDWNEDDYDVLADGAVVDRILKVHAAPVGSPWMWTLDFWHYENRTPTHGYAARRGAAMTAFAKSWRRE*
Ga0066388_1001406085F002001AGGVSRAYLSKKLTRPLPTKDGGTLRTVLDARAYMLRLSKDRERSARWQRAAELLLAEADIGVLTKQVELALFFEAKLDPTAMP*
Ga0066388_1001406087F001448N/AMKKKKERRVYLPRVLGSGQVMMPADLKRLHKYMLEIEHISVISDEVRAVVEEEWPELAHKLPSKKLQG*
Ga0066388_1001406088F004216GGAGVSRLGAFFAVAFCFVAGYLLADLWWSARDASPLAQICARVDYVNGLQENLKGEEAASEEVRAEFKALVEQCRTALRNRADEND*
 ⦗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.