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 Ga0210400_10000286

Scaffold Ga0210400_10000286


Overview

Basic Information
Taxon OID3300021170 Open in IMG/M
Scaffold IDGa0210400_10000286 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-H-26-M
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)59590
Total Scaffold Genes54 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)45 (83.33%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
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?
F003228Metagenome / Metatranscriptome499Y
F009096Metagenome / Metatranscriptome323Y
F009832Metagenome / Metatranscriptome312Y
F016576Metagenome / Metatranscriptome246Y
F025446Metagenome201Y

Sequences

Protein IDFamilyRBSSequence
Ga0210400_100002862F003228AGGAGVEDHLTFEEQLKQHQAAAKAAILAQCDRLAAAGITFVAAHFDGSGDDGITEDVKCYDSDVYAYEEYEHVAHDASELQDHFEVLVPYGYENDAGGFGDVVLDVRKRTITVERNDRFEDYSTTTYEV
Ga0210400_100002865F025446GAGMIRRAFELAKVVTQMHIRVTQRDIDEGVQSNCFHCPVARAIKRVFKATEVWVREIIIVTSAGAKRTYVTPTAAVDFIERFDSAMLEFESPKPFSFTLDERVRATLGGNRASKG
Ga0210400_1000028650F016576GGAGGMKTLAKVLGFICLLLGIPVHVYADRAHDIAKLASAQKAVTGCKPASLTTQSCHTQFPTGCTDSAHRYDAYLNFLKDQVPGALPSTASLADPDFKSLESKIPKGLGASNHAKSAPALANLGEGNIVEVIAYLYFVEDTSKGSGKKPAIGETTNCKLQLPDSYDYHIGFGFDPALAAQILKNKPQPIFGKPGPIDKTSVVAEMTPHTRDSKWTVARVNSLQGQQVKIVGQLMIDNVHLNVNDDCSFPGATAKCWRSTVWEVHPITQFYVCNLKGNKLCDKNSPDTDWTSLDNVP
Ga0210400_1000028651F009096GAGGMVPPSTTVSRQRSERRIAVRLPLKVRGRDSRGVTFEEDTSSENLCRNGAAFLTRFDVAIGSDLEIHIPLSQYASRRPGPERLAAPANGSRFAGVRINESDFATHGRVVHVADSRSAGEKLVGVQFTGPRFQRVFRSESAA
Ga0210400_100002869F009832GAGGMIKFLAQLFRGLHYIVGVSAPPPGTSERRFVFAWLGGIATIVAFFMILVFYIIPILYFRH
 ⦗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.