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_10053665

Scaffold Ga0307510_10053665


Overview

Basic Information
Taxon OID3300033180 Open in IMG/M
Scaffold IDGa0307510_10053665 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)4232
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (72.73%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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?
F028665Metagenome190Y
F028977Metagenome189Y
F029295Metagenome188Y
F044236Metagenome154Y
F059500Metagenome133Y

Sequences

Protein IDFamilyRBSSequence
Ga0307510_1005366510F059500GGAMSGVSVDFGHLASSAAFNVLSYKDFHSRPPVVGCDKLEGFGNPGVSSGFVVMKKGCYSPPKVIVCHDNKCGAVVPVSAV
Ga0307510_100536656F028977GAGVEVVKIEGGSAVFLSEDSGDGDVLESVIEVGPFVIESDHVLDAFLTLLLERCGGGGLGE
Ga0307510_100536657F028665GGAMHSSRFFLSDVEEVVWGNESGVGVGFGLIAFNFFCGSEGVWVGDVEWNIFRFLGSAATVASSANGDNVEWSCGSGLVSRGMGCEWESLVVDMGSEDRVIVVDWDHDGFVVDVNGVEGFSWSPSSPVVRDVKVSTSDEGTEEVEIIVVGVHANKNNSVVGAKGKDGRGGES
Ga0307510_100536658F029295AGGMVEVANPELGSSWWIEDMVVGNKDGRLRFQGFLYCLVDFQSPLVDPMRGDPQS
Ga0307510_100536659F044236GGAMDAFEQSVSVIVRMVSYPPDRGNLVMKSMATVSKGRAFSVGVIGNIGG
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