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 Ga0070697_100003350

Scaffold Ga0070697_100003350


Overview

Basic Information
Taxon OID3300005536 Open in IMG/M
Scaffold IDGa0070697_100003350 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K1-50-1 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)12309
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (77.78%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → unclassified Gemmatimonadetes → Gemmatimonadetes bacterium(Source: UniRef50)

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?
F003589Metagenome478Y
F005262Metagenome / Metatranscriptome406Y
F005616Metagenome / Metatranscriptome395N
F018890Metagenome / Metatranscriptome232Y
F029392Metagenome / Metatranscriptome188Y

Sequences

Protein IDFamilyRBSSequence
Ga0070697_10000335012F005262GGAMRSRLPVLFATMTLALPLAGQAPPGHVYWAGFYQALPGKAAAYNKALTDIADPVLDELVRRKLMVSHVQLAQYSGAGENTNLVILEFPNWAALDSYEAKLDEACQAVLRKPWSEAAAGFAELRRLLRIEIYTPAGRRQ*
Ga0070697_10000335013F005616AGTAGGMLPYGGDNLRGEPWDFRIPRTGDRDLAFRGWLLSHAEERAASAGVTHGVDIDLYLTIRLRLVAHLCRWSLREGKGLSEDHRVAAHDSAAQLIEWLKQENAGRLDAASKRAWVRACQAWPGLKREAVEQVD*
Ga0070697_10000335018F029392N/ASVTVGPMWYFSSAREGIFSNIEHTRFHLPQVALRAAVRADWSSTPFFTDATGALQRSNTKAVLELVYVF*
Ga0070697_1000033503F003589AGGAGMNDDFALQDGKLQEVARRLGARAAERLDVERTAQAVVARLRTEPRADVRVLGIRPAWLRIAAALVIVVSAGVVVLNVRTPSVPTPVPAASAGGELSELSGDELRAVLEALGRPGGEQQAVSAQDVSLEDLSAPQLRALLESLEG*
Ga0070697_1000033506F018890AGGAGGMFGIPDWAVGVGFIMIAVSIAKALAGRIGPPDGHGGPRGSRRGLAQAVEELQKRVGGNEDVAARLDALEDVQRRLADVEERLDFAERMLAKQRDVERVAPPKP*
 ⦗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.