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 Ga0207665_10000024

Scaffold Ga0207665_10000024


Overview

Basic Information
Taxon OID3300025939 Open in IMG/M
Scaffold IDGa0207665_10000024 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L11-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)101596
Total Scaffold Genes86 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)68 (79.07%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
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)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000678Metagenome / Metatranscriptome940Y
F003702Metagenome / Metatranscriptome473Y
F018062Metagenome / Metatranscriptome237Y
F018063Metagenome / Metatranscriptome237Y
F097955Metagenome / Metatranscriptome104Y

Sequences

Protein IDFamilyRBSSequence
Ga0207665_100000242F003702GAGGMRRHKLSVLMSFAAAVVSATIFLVALFEQFALVEVAASIITAVQVFFLSSAIGDLLEKRKETNRTRNSAVVLLTIFLAAFYSFRKYFH
Ga0207665_1000002423F097955N/AMTENPVRSLVVLARGCSHFFILLCCATLILEGCSARRRPDIPWATAIMVRPAAQARITEGNGASDDPLPELRFELPPVSSRLIGLRPVPLRPRNSVSSNAAAGNDSEKSDAPTIAPQLTPQESAVAQQQTNESLNIAERNLGAARGKTLTAAQTDLVSKIRGFINDARAAAQITDWSRARSLAKKAQVLSEELASSL
Ga0207665_1000002444F018062AGGMKPKKKAKSKRPKMPKWFPVDDEMKELAAMLEKEVSDWPGVSKRPMFGYQGLYRDGAIFAALPRSRAMKSPRSLMFKFASMSPALLDSAKKDSRIDTISRVPGPGWFLFEMDEASAMQSALGWLGRAYEAAKK
Ga0207665_1000002448F000678GGAMDKFEEFGKRIDEEFARLKSIKNFEDFGRRVDEELARVKSFVKEEVAPETEKRTAQFLREVSEKFREAAAWIEARNAARSAQPPKDSQS
Ga0207665_1000002468F018063AGAAGGVQTNLKDNDRKWLWGFLAVIVMSQLYFVQELLAVFALFALGFAVIASVVASLYVLQHCWELAVVRLADIRRPVMNVAPVSREDQKAA
 ⦗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.