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 Ga0063356_100128445

Scaffold Ga0063356_100128445


Overview

Basic Information
Taxon OID3300004463 Open in IMG/M
Scaffold IDGa0063356_100128445 Open in IMG/M
Source Dataset NameCombined assembly of Arabidopsis thaliana microbial communities
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2834
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Arabidopsis Thaliana Rhizosphere → Arabidopsis Thaliana Rhizosphere Microbial Communities From The Joint Genome Institute, Usa, That Affect Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: Walnut Creek, California
CoordinatesLat. (o)37.931388Long. (o)-122.021761Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005079Metagenome / Metatranscriptome413Y
F027858Metagenome / Metatranscriptome193Y
F070288Metagenome / Metatranscriptome123Y

Sequences

Protein IDFamilyRBSSequence
Ga0063356_1001284451F027858GGAGGMTCPTCANEMGYSALSMGFMCLEPACGFEIEMEPVQAQQVLEPEEELVCC*
Ga0063356_1001284452F005079GGAGGMVDVSEITLEKLSLFSDRFNVLVTIDAPLYGSVMIFNGRVLHRGGSYVEPEKIGNALGFPTYDHIVAEASRFWILDESGVRRVKCREEMAELLQELQSRATRVSTTKPASVQSAANG*
Ga0063356_1001284455F070288GGAGVRGADNVQSRVKASPIHVGDFAYCRSKYYRDQLQLPEEVGLVIEIKRNNFKILYPNDKRCWLPREALTRVRPEHLEYATFLEQLHYIIKRVH
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