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 Ga0307510_10028923

Scaffold Ga0307510_10028923


Overview

Basic Information
Taxon OID3300033180 Open in IMG/M
Scaffold IDGa0307510_10028923 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 12_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6318
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (73.33%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Agaricomycotina → Agaricomycetes(Source: UniRef50)

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)45.654Long. (o)-122.839Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F055313Metagenome138Y
F057784Metagenome135Y
F061393Metagenome131Y
F069507Metagenome123Y

Sequences

Protein IDFamilyRBSSequence
Ga0307510_1002892310F069507N/AVVDEVTCELKVAPTILGEWGKEGVELGLGEVDDVGGGFFSKLFKIELGSGAKCLLSGLGSRW
Ga0307510_1002892311F055313GGAVTTLLVVDRVLVRVAVGREARRGSEEVFEGADVDCRVKYRDRERSG
Ga0307510_1002892312F061393AGGVSEPKGREAREDKLNRVQKGGLDIAKGELGGPRVLAYFGTDVDRGESAVGVDVDGVMGVGAEGGDEVWGCIGIKVLGPGDVVEELAVDEFLG
Ga0307510_1002892313F057784GGAVPEEGFVVEQGDLSGWGLVKVMSARELPICSAMSCCVKDINKLVINVMIETLSAEESTKGEDI
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