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 Ga0105245_10001998

Scaffold Ga0105245_10001998


Overview

Basic Information
Taxon OID3300009098 Open in IMG/M
Scaffold IDGa0105245_10001998 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS M5-4 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)18512
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)22 (84.62%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

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
F023966Metagenome / Metatranscriptome208Y
F042033Metagenome / Metatranscriptome159Y
F061313Metagenome / Metatranscriptome132Y
F081702Metagenome / Metatranscriptome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0105245_1000199810F081702AGGAMNDQNRVLIRQGSRELSPEEVEQVGGGFNTLSITWGPNGRDGDGLVGES*
Ga0105245_1000199813F042033AGGAMDDQNRVLARKGARSLSEDEIARVGGGINTDTVCTVPTSACPNKDGDASIGECGPIC*
Ga0105245_1000199815F011803AGGAGMNNQNRVLIRQGARELTTAERDLVNGGFITFSLCTNNPSPDGDQHVGEVGC*
Ga0105245_1000199817F061313AGGAGMKDHNRVLVRRGARDLTEKEVEQVCGGLRTATKCSVTAAGAIDGDLHECS*
Ga0105245_1000199819F023966GGAMIKEVAMDTDNRVLTRRGARELSEQEVETVTGAFKVRRTLTPCFVDSKQQFLNGDQAIGECGP*
Ga0105245_100019988F011259AGGAGMLRQEENRVLVRKGARELTVDEIDQVSAAMQNHTNVCTAAMPFATVTGSGDGDGCSDTDKDSNFI*
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