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_10003731

Scaffold Ga0307510_10003731


Overview

Basic Information
Taxon OID3300033180 Open in IMG/M
Scaffold IDGa0307510_10003731 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)17802
Total Scaffold Genes29 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (51.72%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Agaricomycotina → Agaricomycetes → Agaricomycetidae(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?
F011464Metagenome290Y
F055313Metagenome138Y
F057784Metagenome135Y
F061393Metagenome131Y
F069507Metagenome123Y
F072893Metagenome120Y

Sequences

Protein IDFamilyRBSSequence
Ga0307510_1000373110F069507N/AVVDQVTCELKVAPTILGERGKEGVEFCLGETDDVGGSFFSELFKIELSGGAKCLLSGLGSRW
Ga0307510_1000373113F011464N/AMLINGLDARPKRILSCDIVDDQFLDRSCVIFPGSQGRRFPGSRADKSRDIRVAKGSRDESRVGSCDMFPRSRGAGVTGL
Ga0307510_1000373126F055313GAGVAVLLVVNGVLVRVTIGREARRGSEEILKGGDVNHRKKYGEMLSNG
Ga0307510_1000373127F072893GGGGGVLAYFGTDVDRGEGAIGVDVDGVMGVGTERGDEEWGCGGVKVLGPGNVVQELAVDEFL
Ga0307510_1000373128F057784GGAVPEEGFIVEQGDLGGWGLVKVMSARELPVCSATSRCVKDVDKLIIDVMIEALSAEKTTKGEDV
Ga0307510_100037317F057784GGAVPEKGFIVEQGDLGGWGLVEVMGARELPICSATSCCVKDVNKLVINVMIEALSAEESTKGEDV
Ga0307510_100037318F061393AGGVSEPKGREARENKVNRVQESGLDVAEREVGGPQVLAYFGTNVDRGKGAVGVDMDGVMGVGAEGGDEIWGCVGIEVLGPGDVVEELTVDEFLR

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