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 Ga0207653_10000004

Scaffold Ga0207653_10000004


Overview

Basic Information
Taxon OID3300025885 Open in IMG/M
Scaffold IDGa0207653_10000004 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-25-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)263142
Total Scaffold Genes267 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)174 (65.17%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria(Source: IMG/M)

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?
F001373Metagenome / Metatranscriptome712Y
F073522Metagenome / Metatranscriptome120N
F097304Metagenome / Metatranscriptome104N

Sequences

Protein IDFamilyRBSSequence
Ga0207653_10000004173F001373AGGAGGVTSQRADAQEELLLELKSKNTTRSIKDFSSEGIRLESNLEGEAKGVYNATFYATITMLVKPDRTIDYEARQIHTTSDGDTVLVYYKGSSIIESPTHNKFVGETTFQTASKTLAWLNGMTARHEGEYDPVAGENDFRVYGKR
Ga0207653_10000004251F073522GGCGGMDAYVYIRIASGSMADVLAVLAAKPGIKRVVPTVGEWDLVLYARGATLDEIGNNVLAEVHQIPGVVQTITAPVVPPDRAGLFGIAVAPPQILPNACYVHIKAAAGKAVDIGEALAGMEEIDGVALLAGRWDILACIAQPWETASGIILEQVHAIPGVLSTSTLVSIAFDEGEEDRDQFSAWS
Ga0207653_1000000476F097304GGAGGMKDQRLNYAGIGGAVAGVVGLLGIYADWWETDTTVYHGTADISGQLALAMSIGLFAFGAAYVLFSDQRIRRAMGALMTLCAAVLTLACVWGLQRADSVAPGASTQAGLWVSLLGGVMGIVASMLAVKYAADEDASVGSGDEWGSDAVSHSASAS
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