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 Ga0070699_100007580

Scaffold Ga0070699_100007580


Overview

Basic Information
Taxon OID3300005518 Open in IMG/M
Scaffold IDGa0070699_100007580 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K1-50-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)9438
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (70.59%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria(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?
F007995Metagenome / Metatranscriptome341Y
F008658Metagenome / Metatranscriptome330Y
F028295Metagenome / Metatranscriptome192Y
F102874Metagenome / Metatranscriptome101N

Sequences

Protein IDFamilyRBSSequence
Ga0070699_10000758011F028295GGAGMNWTAHYFDRRLNSDSVSRAFASKEDALRQACDLMRQNCVVHFVKGPNDEKIDAVAITAWCKRRPTRKQPPPPKQ*
Ga0070699_10000758012F102874AGAAGGMSDPEHDPVPRRDWKLIVAAVLALALVIGVIAYKYTGDVTGVVKFGTSGQPGRN*
Ga0070699_1000075802F008658GAGMGKLTAEQKVREYNRGQKAAREGRSRSWSEPWAYPFESDQHYEGRREAFNEGYGIIDATPMSVRRSPP*
Ga0070699_1000075805F007995AGGAGMHMHRFGRKLKLPSTIAIKHEIRKLMFEDSVNKAEAGARAEAIRGQLRKETRPLVQLG*
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Institute for Fundamental Biomedical Research
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