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 Ga0307514_10000212

Scaffold Ga0307514_10000212


Overview

Basic Information
Taxon OID3300031649 Open in IMG/M
Scaffold IDGa0307514_10000212 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 16_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)159898
Total Scaffold Genes210 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)139 (66.19%)
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 → Ascomycota → saccharomyceta → Pezizomycotina(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: Washington
CoordinatesLat. (o)46.6253Long. (o)-120.532Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F010438Metagenome303Y
F016905Metagenome / Metatranscriptome243Y
F046750Metagenome150Y
F059517Metagenome133Y
F102183Metagenome / Metatranscriptome101Y

Sequences

Protein IDFamilyRBSSequence
Ga0307514_10000212148F102183GGAVMKKPKISLPMSLVFAEEKCSQALLDFLCLTDVGRISGVVEEAENSDHKESSEGGG
Ga0307514_1000021225F016905N/AMPEHNYTPAEHTLQKVVKSFGNLIFELAEHRLTHTYAVVFRFCQLENINYLVLRYLNTGPLPFEEFSEEWLYDGEV
Ga0307514_1000021264F010438GAGMWTRWPFMSASDLEMVSYATLCAAKALAEAPHWQIIEKYWNTTMQQNNILSIAFEACTKEILKEVC
Ga0307514_1000021265F059517GAGGMRRPTLDIICSIWNQVRAQVDKVKSHLIQSAKDHIAEVYDPHCFESDAEPLEFIDSLLADNKYLFLVAEHVEGGVCGPNPTQRVSEAANE
Ga0307514_1000021266F046750GAGVGYAVQIQRREYRKQLTNSQSPLYFLADAILRFIYINFGYWANNRSDGFYNSMIDDKNGLIPSPLIMFTCTALRHALLEWQKNKGFHPKASKSMLKADRPDHLNYFNYMNDGGKNQSCCAATGRKLWTSPGVTDTYTFLMNTWNTLPESYQQRVYKHTLATVKHQIQQVENLTPAEVISMEAVHGDNAIHHDYLTSEVALGEPEIGSTDPNIPIDNDCTDDKPHFGMPGGCEAYDDEGYEINESDAIHTSSRR
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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