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 Ga0210395_10000014

Scaffold Ga0210395_10000014


Overview

Basic Information
Taxon OID3300020582 Open in IMG/M
Scaffold IDGa0210395_10000014 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-H-4-O
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)265267
Total Scaffold Genes232 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)170 (73.28%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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

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?
F000272Metagenome / Metatranscriptome1408Y
F000508Metagenome / Metatranscriptome1069Y
F001031Metagenome / Metatranscriptome800Y
F001765Metagenome / Metatranscriptome639Y
F035013Metagenome / Metatranscriptome173Y

Sequences

Protein IDFamilyRBSSequence
Ga0210395_10000014136F035013AGGGGGMAGRSTAKLREELGRLMEEQVESLRKQTFLGLDKAELHRQEARLRCIREVSADFLAALKREGQ
Ga0210395_10000014143F001765N/AMPYISEHLSSLRQEIADLRDLNARLSEKGGHTAVDQTALELRTNRLREIKQELSKILNRPDDPKVWWERSRRPQQPA
Ga0210395_10000014176F000508AGGAGGMTNLKKVVSSLRYEYSRLEKEMGRVGKALDALGQAGGKTLKKTGRTLSKEARKRIADAQRLRWAKVRKQAAKLVKS
Ga0210395_10000014227F001031GAGGMKPAIETPSGASTDPYQKTVCCLRCEQKLQRYQLMRASLTLGNSGHAILSCPRCGHVEFVSDSSPLLQSLELVSVDTGDGD
Ga0210395_1000001469F000272AGGAGGMSQTILERTADQIAESAHQASRATSAVADAIDDGVGVVRRAAKQGGDAAEEFLQDTTQRIQRHPALTVAATFAVGFTAGALIGLMIKRK
 ⦗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.