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 Ga0207687_10003073

Scaffold Ga0207687_10003073


Overview

Basic Information
Taxon OID3300025927 Open in IMG/M
Scaffold IDGa0207687_10003073 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS M5-4 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)11327
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (94.44%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameMichigan, USA
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F011259Metagenome / Metatranscriptome293Y
F011803Metagenome / Metatranscriptome287Y
F042033Metagenome / Metatranscriptome159Y
F061313Metagenome / Metatranscriptome132Y
F081702Metagenome / Metatranscriptome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0207687_1000307311F061313AGGAGMKDHNRVLVRRGARDLTEKEVEQVCGGLRTATKCSVTAAGAIDGDLHECS
Ga0207687_100030733F011259AGGAGMLRQEENRVLVRKGARELTVDEIDQVSAAMQNHTNVCTAAMPFATVTGSGDGDGCSDTDKDSNFI
Ga0207687_100030735F081702AGGAMNDQNRVLIRQGSRELSPEEVEQVGGGFNTLSITWGPNGRDGDGLVGES
Ga0207687_100030737F042033AGGAMDDQNRVLARKGARSLSEDEIARVGGGINTDTVCTVPTSACPNKDGDASIGECGPIC
Ga0207687_100030739F011803AGGAGMNNQNRVLIRQGARELTTAERDLVNGGFITFSLCTNNPSPDGDQHVGEVGC
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