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_10000603

Scaffold Ga0307507_10000603


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000603 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)77640
Total Scaffold Genes25 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (64.00%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta(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?
F041034Metagenome160Y
F056213Metagenome137Y
F084969Metagenome111Y
F088008Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100006031F041034AGGVDVGGILMLVEFGGILGLVELGGLFRYRVDVGRNFRLVNPSRFFRFWFRV
Ga0307507_1000060310F084969AGGMLPKALVITLLMVAITLGLEGDTSIRDTNSQLITVG
Ga0307507_1000060317F088008GAGVLLHLIIKGLFRCNVIALNSLLIKIASFTVYNRANNSASVLDVITVPCLFAL
Ga0307507_100006032F056213N/AVDFGIRRSILLYCLLITFAQALRAPSRSTPIREGFSLGLRDLIRLLISAELF
Ga0307507_100006036F041034GGAVEFGRILRLVEFGKILRLVELGGLFRYRVDVNRNFKLVDPGRFFRF
Ga0307507_100006037F056213N/AVGFSIRRSILLYRLLITFTQALRALSRSIPIREVFSLGLRDLIKLLTSVELF
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Institute for Fundamental Biomedical Research
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