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_10007943

Scaffold Ga0307510_10007943


Overview

Basic Information
Taxon OID3300033180 Open in IMG/M
Scaffold IDGa0307510_10007943 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)12628
Total Scaffold Genes24 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)19 (79.17%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Agaricomycotina → Agaricomycetes → Agaricomycetidae → Agaricales(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?
F016489Metagenome246Y
F028665Metagenome190Y
F028977Metagenome189Y
F029295Metagenome188Y
F075486Metagenome118Y

Sequences

Protein IDFamilyRBSSequence
Ga0307510_100079431F075486GAGGVPVVLLSATEYSKVLFEGLIGTFAGSVCLRVIGCADVLVNVQDAA
Ga0307510_100079432F016489N/AVSSEAWKTSWIFQLGGSLILYATLDIWETTSKGPYLLGDNLGVILLGSRRFVPSNQTLDLTGNGEWCGRSLIQDSCALRCASWAAFLASSIAESRCSRDGMSVFLVGW
Ga0307510_100079433F029295N/AMRIIPSLVPRVKMVEVANSELGSSWWIADMVVGDKEGRLRFQGFLYCLVDFQSPLVDPMHGDPRS
Ga0307510_100079434F028665GGAMHSSRFFLSDVEEVIWGDKSIIGVGFGLIVFDFFCGSEGVWVGGVEWNVFRFLGSVATVASSANGDNVEWSCRSGLVLRGMGCERESLVVDVGPEDRVIVVDWDHDGFVVDVNGVKGFSWSPSSPVVRDVEVSTSDEGTEEVEIIVVGVHANENNSVVGAKGEDGRSGEF
Ga0307510_100079435F028977GAGVEVVEIEGGSAVFLPEDSGDSDILESVIEVGPFVVESDHVFDAFFTLLLERCGGGDLGG
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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