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 Ga0207684_10000006

Scaffold Ga0207684_10000006


Overview

Basic Information
Taxon OID3300025910 Open in IMG/M
Scaffold IDGa0207684_10000006 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)688605
Total Scaffold Genes687 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)435 (63.32%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan: Kellogg Biological Station
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000443Metagenome / Metatranscriptome1132Y
F002065Metagenome / Metatranscriptome597Y
F004016Metagenome / Metatranscriptome457N
F011454Metagenome / Metatranscriptome291Y
F032208Metagenome180Y

Sequences

Protein IDFamilyRBSSequence
Ga0207684_100000062F004016GGAGMGAAVRFCAMDPNAAATWRDLYIGTVGAGASLTGLTFVAIALDPHQIERTPLLRLRAASALWCFVTVMFIGLAVLTPRPFTSVASVAVGVGGISGAVLLSVRTIRQRIFRQPHPGATVFRAAGNVFGFVLAGVGGLSLIDVEQGWVFATLAAACVIMLSSGIFASWLLVLQIGVPSGEKP
Ga0207684_1000000627F002065GGAGGVAKWNPLALKLVMWLMGILIAAGSAAGFIGGSFFAFDQNFGVTASVAGIAFGAGLMIAGFDPIANVSWVRALIIYAILQVVYQLFAWISIGRFDLWPFVIAIVAGAVLVVLYPNKPELWMAGTMKMPSGMGGGMARSKM
Ga0207684_10000006377F011454GAGMIRNTVESWRPQRGPDWSGVLIRLANSGPPPWLLYTAASAALVVILLVAFLVGSALQIGALGPQPVPSNLH
Ga0207684_10000006453F000443N/AMGGVGPSIAWLKVDVLTAYQRITAEMQVHGRLRDTMNDPESLFHLRNVSAEPLMPGAVPLNGVPEGTFNKLAVCGIRTIDAEPPLPDQPEVIRRFVMFQGTSFMVTGAAEFPKLSDPKMHAEVLMKSRFFPMVDVTVVVIGTAGKSWTQPAIWINRDLMMALYLG
Ga0207684_10000006574F032208N/AMLRVAGIVALIVLAACNEPSAKPSPSPTPIVAQASWTQNLTFAGELSGHMSGIVPDVGVQKSQCTGGRTHNGETWADIFYGTVDVSGDVWGVVFQINNFRGPGTYQNSSVTVEVHNADATKVWQSRGSDKITFVLDRSQQSGTVDAMLTNATTGKDGLQVTGRWNCRQ
 ⦗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.