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_10000198

Scaffold Ga0207646_10000198


Overview

Basic Information
Taxon OID3300025922 Open in IMG/M
Scaffold IDGa0207646_10000198 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)81629
Total Scaffold Genes87 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)55 (63.22%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

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?
F006382Metagenome / Metatranscriptome374Y
F021274Metagenome / Metatranscriptome219Y
F049524Metagenome / Metatranscriptome146N

Sequences

Protein IDFamilyRBSSequence
Ga0207646_1000019835F006382N/ALNPESLSRPQARLADDLFALDPRIRYVALLDRNHKLVESRMRTSVASFTPESYDRKFMGSVPPLILDTLSQLETQCGPLSHISVQYEKLDLIFVPHNNQIIAISLETGPLEPILRKLRDNLGVPIHL
Ga0207646_1000019861F049524N/AMEGNRLKARLRKRKSRKVGDLKEGIISQQLGELGLAETQYPMYNHEIVPTMYANFALYHARDGKRHVRSYYDLLRDIAKLNGTNLRTMLANMAPRDEQN
Ga0207646_1000019884F021274AGGAGMQKSNGMSERIRPHILIRTIEDSKVPLGEEESKLQKIKGKVEHDEQLSKEDEALLTRLAERAKEWQKGLKSSSDTEPDDTLSG
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