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 Ga0307515_10000404

Scaffold Ga0307515_10000404


Overview

Basic Information
Taxon OID3300028794 Open in IMG/M
Scaffold IDGa0307515_10000404 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 17_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)104357
Total Scaffold Genes103 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)64 (62.14%)
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 → 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)46.6992Long. (o)-120.899Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F008227Metagenome336Y
F008531Metagenome332Y
F019765Metagenome227Y
F089625Metagenome / Metatranscriptome108Y

Sequences

Protein IDFamilyRBSSequence
Ga0307515_1000040472F089625N/AMTPLGFGTGLSHNQAESQPVQSNQDEHNYGWQQILNGQSIKMSVNEASTICGLVSTVIH
Ga0307515_1000040476F008531AGGAMTHVIQLALGAFMSSLGVKGRTKSWEANERDQQFGENERIDIGKSQRLRKEGNARINKVSVMRPGLAKLLEKVHIS
Ga0307515_1000040482F019765GGAMDNMEVSSVFYVKVSTFTHLKQIKIALLTITISGIMTLTVQHDIIVSVSFM
Ga0307515_1000040484F008227N/AMDTQPPPPGQSRSNTGRLAGATSNSEILGTQQEGSHKLLHSDAANLATKHMTQDAHLKIVRKTSSSKNKKHHAVGCVYILIEADGGQLAV
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Institute for Fundamental Biomedical Research
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