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 Ga0207656_10000177

Scaffold Ga0207656_10000177


Overview

Basic Information
Taxon OID3300025321 Open in IMG/M
Scaffold IDGa0207656_10000177 Open in IMG/M
Source Dataset NameCorn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Corn C1-2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)22947
Total Scaffold Genes28 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)22 (78.57%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Corn 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?
F008693Metagenome / Metatranscriptome329Y
F016613Metagenome / Metatranscriptome246Y
F048383Metagenome / Metatranscriptome148Y
F051497Metagenome144Y

Sequences

Protein IDFamilyRBSSequence
Ga0207656_1000017714F048383GGAGGMELLLFIGLLSLVVSGGLLVAVMSNDPYAQDNTYSLADHELADLVNPP
Ga0207656_1000017716F016613AGGAGGMSLLQQIIDGSLVSRQRLMESREFYSPSERKGPARVALARWTNRVLEQPALGVARELAGLSETELDELEAEFRRCPTRQPRQWVRCAVVVGIVLMALAGLGLGLQALTSLGETASRTLQAASVACLLIGLLPLGVGLISAFGGLHLDLSYGTVGLYVGKLDEQHPWLYDARSLTKHGIAEEYRQRTLHERGFLRGADFVMMRELVQAQEALARVRAARSVAEQFQSLPMAAQPIVHEPRLVSVSAARDHREPLNAEMSRARP
Ga0207656_1000017717F051497AGGAGMSLGALWYEVSPYVYFVVGLASASFSNSDFGLLCSALLLTATFTIVRLRRIHRSPDSVKFRKYSRPRS
Ga0207656_1000017719F008693GAGLVEYEAMQGPRKFVEYWRWRYRDPQTGRVCRTLFQLSEREAAALPEAERIEGSMLLREVDGDDFPDTGPEVHRLSPESQQSP
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