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 Ga0307512_10001131

Scaffold Ga0307512_10001131


Overview

Basic Information
Taxon OID3300030522 Open in IMG/M
Scaffold IDGa0307512_10001131 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 14_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)38784
Total Scaffold Genes54 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)36 (66.67%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
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)45.6996Long. (o)-121.669Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004778Metagenome423Y
F019765Metagenome227Y
F079413Metagenome / Metatranscriptome115Y
F086388Metagenome / Metatranscriptome110Y
F088003Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0307512_1000113120F086388N/AMETVDKTVERQEMATLKEGNRTLAVAVDNDWSVSHIDCLCEWHVVNFYPVILDYHHHIVAGQIGHQVEPYPLSSVEIHSSTLSVIQRWW
Ga0307512_1000113131F079413N/ALKLNISTIRGRIVDAARRTVVRSCQFDIGAETELRIKVKDLLFDDAYLSRIVNDKKSWFTQMEVLDLIYHQIFITTNSLGRQPTTSQYFQPLAAQTLALAATAIHYALSEYASGK
Ga0307512_1000113145F004778GGAGVLDRFELTDSRLLGIPTDNASSNYSMTCELQSTREASGIAWPALRNHIPCMAHVIQLALGAFMSSLGVKGRTKSWEAHEHDQQFGENESIDIGKSQRLRKEGNARINKVSAMRPGLAKTIEKLHIS
Ga0307512_1000113147F019765GGCGGMLQVMDTMEASCVFYVKVGTFTHLEQSKISLLTVNKSGIVTLTVQHNMIVSVIFM
Ga0307512_1000113149F088003N/AMAFVRTVSEMEHHDVVSSGIFADEFPDNHPREWTKQALITSEEATEMYMVEVTAEFHC
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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