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_10000018

Scaffold Ga0210404_10000018


Overview

Basic Information
Taxon OID3300021088 Open in IMG/M
Scaffold IDGa0210404_10000018 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)334750
Total Scaffold Genes317 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)244 (76.97%)
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?
F001517Metagenome / Metatranscriptome679Y
F005058Metagenome / Metatranscriptome413Y
F011313Metagenome / Metatranscriptome292Y
F017861Metagenome / Metatranscriptome238Y
F042768Metagenome / Metatranscriptome157Y

Sequences

Protein IDFamilyRBSSequence
Ga0210404_10000018165F017861AGGAGMSKRGKATLVESAIVLALMGILAGAIGGLAIGAATSPKTASTATH
Ga0210404_10000018168F001517GGAGGMKNDERLNLDSDRTWVLSSLEHDQLANAKKQPIARRNLKGPELFVLWALRVYVLFMMTVVGYQVWIAAH
Ga0210404_10000018238F011313GGAGGVLKTAAVVLAFLSLTLFPTISKAQLIPSGNLYAGAAYASSEDVVNRLAFRGWDGSVEAFPLHRLSYLGIVLDGSGLYTKGVANSGTIQQYNLVLGPRVSMNYGKWRPFVHAMGGIQQTKSGGNTYHPVAIDIGGGVDRKLPFKNFSWRLQFDYVHTHLLSQTQNEYRGSTGIVWRF
Ga0210404_1000001875F005058GAGGMRRFVVIALMLVSAAGPAFGKTHKEMYTMACADLWPAVKDTLRNSGKYGIISIDNTDMAASFNIGGTLTGKRVNSVVLNTREKACEMQVQTAFSGLVNNDEADFKKRVDASLAQLQKSPPAAPPAKTENPSK
Ga0210404_1000001890F042768GGAGMRDVMELLRAKEQELVKVKRQVEALRIAAPLLGGDQDQATHSNGPAMVKDAGH
 ⦗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.