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 Ga0207708_10000003

Scaffold Ga0207708_10000003


Overview

Basic Information
Taxon OID3300026075 Open in IMG/M
Scaffold IDGa0207708_10000003 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-10-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)324662
Total Scaffold Genes299 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)183 (61.20%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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?
F008503Metagenome332Y
F018610Metagenome234Y
F068101Metagenome / Metatranscriptome125Y

Sequences

Protein IDFamilyRBSSequence
Ga0207708_10000003113F018610AGGMIEVAVTVAIAGVEPEEHFLYLAPFSERRDGPETVSDYLNGRRRFFPMLVAGASKMLNRDQILWVRYERLPDIAELDDTIVEKRTIIELADGTRIEGVLPLGDRPRESSRVSDVLNDPREDFFRLDDENETYYVNKMFVRTVIPH
Ga0207708_10000003219F008503GAGMKKALVIVAVLVVALALVVWVISWFRVPEAVATSAARPWPGGMGTLDSLPDALPLQKANGAPAKLVALTSAWPANETVEGYVTGEIARSELTIGKPPTLPDVAAIRELLLREPIVWARHEEIGNAETQAMRAVQLKVARALVASALVKARTGDAAAWEDLHAVWKLARTLDGHVQMMEQTAVLTMARMINAVAWKMPLPAPAWLGELQERDDIRPLLVAYQHQTASYWKSGAEIFPTKSLATSVENDRLIAEAVFKETRCDVTARMNELGTDLASVWRRAFRYRAEREATANALRVREKKPIETASRCSDGAWTFDGTTLRFSREIATAPPDRPMPLVLRVIASGASF
Ga0207708_1000000343F068101AGGAGMANGFPEDHERSAAGLDFEDDPIRAGAASLGAKMVENGPEAVLDEIENLLPESWREQIQSFPIAAVALGIGIGVWLGMKKSEEIIAAGTALVSSAAMANVSQVMDKVKGGA
 ⦗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.