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_10005696

Scaffold Ga0307510_10005696


Overview

Basic Information
Taxon OID3300033180 Open in IMG/M
Scaffold IDGa0307510_10005696 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)14841
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)21 (80.77%)
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?
F006648Metagenome367Y
F016489Metagenome246Y
F028665Metagenome190Y
F028977Metagenome189Y
F029295Metagenome188Y

Sequences

Protein IDFamilyRBSSequence
Ga0307510_100056961F016489AGGGGGLILYATLDIWETTSKGPYLLGDNLGVMLLGSRRFVPSNQTLDLTGNGEWRGHSLIQDSCALRCASWAAFLASSIAESRCSRDGMSVFLVGW
Ga0307510_1000569616F006648GGAMTGLHVCKTLVVIMKDVEKSLNDVRDDLEGMRAKTESAVEATTLGIKPSQA
Ga0307510_100056962F029295AGGMVEVANPELGSSWWIADMVVGDKEGRLRSQGFLYCLVDLQSPLVDPMHGDPRS
Ga0307510_100056963F028665GGAMHSSRFFLSDVEEVVWGNESGVGVGFGLIVFNFFCGSEGVWVGGVEWNVFRFLGSAATVASSANGDNVEWRCGSGLVSRGMGCEWESLVVDVGPEDRVIVVDWDHDGFVVDVNGVKGFSWSPSSPVVRDVEVSTSDEGSKEVEIIVVGVHANENNSVVGTKGEDGRGGKS
Ga0307510_100056964F028977GAGVEVVEIEGGGAVFLSEDSGDGDVFESVIEVDPFVIKSDHVFDAFFTLLLERCGGGGLGK
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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