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 Ga0307507_10001112

Scaffold Ga0307507_10001112


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10001112 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 7_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)59715
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (57.14%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
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: Oregon
CoordinatesLat. (o)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000630Metagenome971Y
F002555Metagenome548Y
F038017Metagenome166Y
F078050Metagenome / Metatranscriptome116Y
F088008Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000111212F002555N/AMDIIPLVDDLEMLEIFKDKDKEEGDSVIDALSTVLRLLREELAEAS
Ga0307507_1000111213F038017GAGVVRLTRYRFKLKDKDKLRVNLKYIAHYILLWIACVDNICNMHKAPKDKNWKYPVRIY
Ga0307507_1000111214F078050N/AMVDIKERLNKEKQLEDLREKVRARRKDSDDIIVQLTH
Ga0307507_1000111215F088008GGAGVLLHLIIKGLFRCNVIALNSLLIKIAFFTVCNRANNLASILNVITIPCLFAL
Ga0307507_100011127F000630GAGMGVKGIEVDLGKGNLSRSIGNAIGGKYLRALRGPNKGGKYNGNTFKNRNNRTKRLALLGRCPSR
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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