NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0207646_10010298

Scaffold Ga0207646_10010298


Overview

Basic Information
Taxon OID3300025922 Open in IMG/M
Scaffold IDGa0207646_10010298 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)9146
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (63.64%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Archaea(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
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006340Metagenome / Metatranscriptome375Y
F007853Metagenome343Y
F015711Metagenome / Metatranscriptome252Y
F029079Metagenome / Metatranscriptome189N

Sequences

Protein IDFamilyRBSSequence
Ga0207646_100102982F029079GAGMPQRPEELTQSSLAEILGKMSEKGYAVNFDVTLELATPTLKVGTVRVHGKLESAALKKR
Ga0207646_100102983F006340GAGLTSRYVALVAVLTALFTVYGYVSSIELRSLTRSLDLFFLLPAFFAILISLTGKKWGGTILATIIGLIFLGTPSAGSNFSPHITASIIVNGLVFDLYLQHSGGGLLDPSRKHLVVAGTLGNLAMAPTGLLILQAVFGTSILGPSPAATWAIALIGDTLVGSAGAFFGTMVVERVKGVQARRVLEAKSAVRVRA
Ga0207646_100102984F015711N/AMSNNDRMNSTDSKKTRGHNLVRSLVLGFIVLVSAWSAVAYFHVAPLQEYVTNIIKPADSLLRITLIVTFGGFISSIPILRSLSRKDKTPQVKVQPIPQYRSPQVHPLFMTSRPARDTSFVIRKTKNRGKISRNRDGERLPPSYPE
Ga0207646_100102986F007853AGGALSKRSPAEQKLLESKLERALDEALSKVSIALDKASKPSANFAMEIWFAAEALEYTSLLFNLAYGLEDLQPIVKPRRHEAVLALIKDSMDLLKRAREGRQESETDAYVNLRTAADYLKTAHLHQVKRFAKK
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