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_10071748

Scaffold Ga0307510_10071748


Overview

Basic Information
Taxon OID3300033180 Open in IMG/M
Scaffold IDGa0307510_10071748 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)3445
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (85.71%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
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?
F016489Metagenome246Y
F016903Metagenome243Y
F028665Metagenome190Y
F028977Metagenome189Y
F075486Metagenome118Y

Sequences

Protein IDFamilyRBSSequence
Ga0307510_100717481F016903N/AMLKQSPTPSGLSTPSSLGLGSLYRTPVQTIVELEDEQMEEGETTDSDSSMEEGQIADTGQSTLDSMDIGIPCVPSDWLQTDSP
Ga0307510_100717483F028977GAGVEVVEVEGSGAVFLSEDSGDGDVLKSVIEVGPFVIESDHVFDAFFTLLLERCGGGGLGG
Ga0307510_100717484F028665GGAMHSSRFFLSDVEEVVWGDKSSVGVGLGLIVFDFFCGSEGVWVGDVEWNVFRFLGSAATVASSANGDDVEWSCGSRLVSRGMGCEWESLVVDVRPEDRVIIVDWDHDGFVVDVNGVKGFSWSPSSPMVRDVEVSTSDEGAEEVEIIVVGVHANENNSVAGTEGEDGRGGES
Ga0307510_100717486F016489AGGGGGLYATLDIWETTSKGPYLLGDNLGVILLGSRRFVPSSQTLDLTGNGEWRGRSLIQDSCALRCASWAAFLASSIDESRCSRDGMSVFLVGWCT
Ga0307510_100717487F075486GAGGVPVILLSATEHTKVLFEGLIGTFTGSVCLRVIGRADVLMDV
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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