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_10058604

Scaffold Ga0307510_10058604


Overview

Basic Information
Taxon OID3300033180 Open in IMG/M
Scaffold IDGa0307510_10058604 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)3984
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (62.50%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
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?
F016903Metagenome243Y
F028665Metagenome190Y
F028977Metagenome189Y
F029295Metagenome188Y

Sequences

Protein IDFamilyRBSSequence
Ga0307510_100586042F016903N/AMLKRSPTPSTLSTPSSLGLGDLYRTPVQTIVELEDEVMEEGETTDSDSSMEEGQIVDTRQSTPDSMDIGIPHVPSDWLQTDSP
Ga0307510_100586046F028977GAGVEVVKIEGGGTVFLSEDSGDGDVLEFVIEVGPFVIESDHIFDTFFTLLLERCGGGVLGG
Ga0307510_100586047F028665GGALTHSSRFFLSDVEEVFWGDKSGIGVDFGLIVFGFFCGSEGVWIGDVEWNVFRFLGSAATVASSTNGDNVEWSCGSGLVSRGMGCEWESFVVDVGPEDRVIVVDWDHDGFVVDVNGVKGFSWSPSSPVVRDVEVSTSDEGTEEVEIIVVGVHANENNPVAGTEGEDGRGGES
Ga0307510_100586048F029295N/AMRIIPSLVPRVKMVEVANPELGSSWWIADMVVGDKEGCPRFQGFLYCLVDFQSPLVDPMHGDPRS
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Institute for Fundamental Biomedical Research
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