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 Ga0070711_100000351

Scaffold Ga0070711_100000351


Overview

Basic Information
Taxon OID3300005439 Open in IMG/M
Scaffold IDGa0070711_100000351 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L5-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)23794
Total Scaffold Genes23 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (65.22%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(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)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002523Metagenome / Metatranscriptome552Y
F005065Metagenome / Metatranscriptome413Y
F005435Metagenome / Metatranscriptome401Y
F009649Metagenome / Metatranscriptome315Y

Sequences

Protein IDFamilyRBSSequence
Ga0070711_10000035111F002523AGCAGMLVIVSVSRLDNGRIEVGVARPQHDSNPTHNYPSEKEARAVLSDFGISEELVASHLKLLAQMGASEQLKFPPMNVPQHELRSKGFRL*
Ga0070711_10000035116F005435AGCAGGMSCKSCQSENQRSLNGEIAIHFPGIKGLEKPIVECFPKLLVCLNCGFTEFAVPEAELRRLAESDAAGA*
Ga0070711_10000035118F009649GAGGMKHEKLKATTVRFTDSDLHLIDRLQEKLGLGMIHVIRLAIRRLAESENFLPPPSSRKKR*
Ga0070711_1000003517F005065N/AMMIVMMDANNISERLASMKREINDLKVINARYCVRSPHTALDKSAHALRRERLLGIKQELSNMMKRCA*
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