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 Ga0307507_10000654

Scaffold Ga0307507_10000654


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000654 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 7_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)75042
Total Scaffold Genes23 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (73.91%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Associated Families7

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Roots → Unclassified → Unclassified → Ectomycorrhiza → Soil And Ectomycorrhiza Microbial Communities From Populus Trichocarpa Stands In Riparian Zones In The Pacific Northwest, United States

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002555Metagenome548Y
F002793Metagenome529Y
F013992Metagenome266Y
F024756Metagenome204Y
F035578Metagenome171Y
F050242Metagenome145Y
F054477Metagenome139Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000065412F002555GGAMLEIFKDEDKEEGDSITDALSIILRLLREEIEEAS
Ga0307507_1000065413F050242GGAMLLCIPISTAKDIGYFSSGSKEVVYINFKLVLQLELLIIKYRVSSVCK
Ga0307507_1000065419F054477N/AVSTSLGVRARANKSNSPSINWRYRLSIGIRLFFRFNIVANKEYCLTIIGSLKV
Ga0307507_1000065420F024756GGAMPIYNMAHCITVGKSTSTNSLKRLILRLGSIIVVGKTEISNLYKPFLNLLL
Ga0307507_1000065421F002793N/AMDITPLVNNLEILGIFKGEDKEEGDSITDALGIVL
Ga0307507_100006543F013992GGAMAVIIVPYIAVNIYNYSRLVVAVANNPIGLILSRVGHRDLGICFSNKPGL
Ga0307507_100006546F035578GGAVARVGDIAEGIINVNYKAIVEVLVEVYLKTINRRNAIFIRS
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Biomedical Sciences Research Center "Alexander Fleming"
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