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 Ga0210410_10000020

Scaffold Ga0210410_10000020


Overview

Basic Information
Taxon OID3300021479 Open in IMG/M
Scaffold IDGa0210410_10000020 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-C-4-M
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)295936
Total Scaffold Genes275 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)224 (81.45%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F005312Metagenome / Metatranscriptome405Y
F006524Metagenome / Metatranscriptome371Y
F052841Metagenome / Metatranscriptome142Y
F082787Metagenome / Metatranscriptome113N
F104540Metagenome / Metatranscriptome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0210410_10000020158F052841GAGMVSEKKARKWMWVGLAAFVALQIYFVQEMLAALVLFAGVFVIVAVIALLIYLVDRAGQWSIGWAGERARPAMQLARRGWALAEDLSKKPFRRPRSETAQ
Ga0210410_10000020167F082787GGAGMSLHNLGQMGAIGEIMALVGVAILWTFRLQAFEWLREFFDIWRGQISGRDPLLADPLYGRLKPRRPRGALLLIAALALVFLGQVLFLIDLTF
Ga0210410_1000002026F006524GGAGGMKFVGFLLLLTGWLLVLAAIVLLASPLPLAVFVLAGVAVEALGLTFVIRSHLILREDKR
Ga0210410_10000020272F104540AGGAGGVKSIRGISGVVFAIVVMAGWGGFPSSLHAQASVGGEFRLSQSVHWGRSVLPTGEYTYSVESAGWPNIVRVSQVGGSFTGVFLPRTTSQDGDSSSKGIVLARIGEEMFVTSLRVEERGLVLNFLPPHADTEVARPEATRTRYISVTKDPALGYFTIFNPGGEKISYSEAEKVYVAACETIEREFNRSNPIRPRLTVHLHSTENNLHYPDRDLRLVRWDKNKFAEAVVELVLHDMISPEDRQRLIKMAVAQAGATVSLCELKNCTN
Ga0210410_1000002046F005312GGAVTYRAGDIVLPATGNLAADSGKSIFLEESYQQKGNVKTFRWEIPYPCIVQLNECAEGPKLNDSVNEAPQETTEPAREAGTLHLKNRPA
 ⦗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.