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 Ga0210404_10001105

Scaffold Ga0210404_10001105


Overview

Basic Information
Taxon OID3300021088 Open in IMG/M
Scaffold IDGa0210404_10001105 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-H-28-M
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)12004
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Archaea(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?
F006299Metagenome / Metatranscriptome376Y
F010312Metagenome305N
F014110Metagenome / Metatranscriptome265Y

Sequences

Protein IDFamilyRBSSequence
Ga0210404_100011051F010312GGCGGMASPKKELMMLRVFRLTLPAALLVSLTWMTLFTDTARQAVINSLGANANIIIFILGLFLVIGLYWVMGVYERKILYENHRTRPAF
Ga0210404_100011053F014110GAGGLKPKTSSKPIGKMKKEQQIVDLGKLPDKTGVAVDFLREHVKSVNGRVSTKGNQIQVEGLKHKEVKLLMHKFLRHNGLDDHRVLSQGGTLEIVPQHLVVHSRPQEGTPPPASATMPYLFPGASAAVPTGKKSKKS
Ga0210404_100011054F006299GAGGVTNYRIISASGRYIDRSLMTVSPEVLLRDVPEIVEFNQLKGRTTAEALTDLVNEFGIVYVTALTRQGCSGCETQKPLFKTLAEKMTGENATRVRFRSFHVNYQDGDKRESWRSKGIFGHAAYPTYMIHVKSHVGPLEIYRSVYPPMEELERQIKESFELADFYKTEAENGSRRSSERL
 ⦗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.