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 Ga0210401_10007846

Scaffold Ga0210401_10007846


Overview

Basic Information
Taxon OID3300020583 Open in IMG/M
Scaffold IDGa0210401_10007846 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-H-32-M
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10651
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (77.78%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Forest Soil Microbial Communities From Barre Woods Harvard Forest Lter Site, Petersham, Massachusetts, United States

Source Dataset Sampling Location
Location NameUSA: Massachusetts
CoordinatesLat. (o)42.481016Long. (o)-72.178343Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002929Metagenome / Metatranscriptome520Y
F003851Metagenome / Metatranscriptome465Y
F036259Metagenome170Y
F051420Metagenome / Metatranscriptome144Y

Sequences

Protein IDFamilyRBSSequence
Ga0210401_1000784610F003851GGAGMKRRILAATPTCRTIDEDAKRVVRALEKVTHGRANTNDPIMEQLKQCPEGFKVGEILGKVFDSLKCVQDGGDLGERYLPPAGTVVPPLV
Ga0210401_1000784614F002929AGGTGGMSQSFRAVKEIWNVHSPCFIEPEKLIVLLHDLAARVETASDEHEYGDKQAVWLENGRKVLDYMEADERFSAASFHDRMEEQGIAVNRNDLITLIDNMRSLSKQWRSSIGKHGELLFYIDA
Ga0210401_1000784616F036259GAGMFGAHRRGFEWKEIAKVLHMTRAVARATFWREIKRSRSKSVKAQPPAIVIQDETDPDARKLGKPTGSR
Ga0210401_1000784618F051420GGAGGVCVDGPGILTAIRTQPPEGSSMGEADGVHKRRMFRWPKEARELVREYKERTNRSQEHTETGRRMLVTKLAAISGNPRDACLRFLRELGVNQKRAYREWTKPEQQRLLDLITAMPVEEAAKILRRPAGSVRSTLHRLGIGGKTGRDWFTKFSLSRALHTRPDEIQKW
 ⦗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.