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 Ga0307510_10053838

Scaffold Ga0307510_10053838


Overview

Basic Information
Taxon OID3300033180 Open in IMG/M
Scaffold IDGa0307510_10053838 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 12_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4223
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (72.73%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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)45.654Long. (o)-122.839Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F016489Metagenome246Y
F016903Metagenome243Y
F044236Metagenome154Y
F075486Metagenome118Y

Sequences

Protein IDFamilyRBSSequence
Ga0307510_1005383810F044236GGAMDAFEQSVSVIVRMVSYPPDRGNLVIKSIAIVSKGQAFSVGVIGNIGG
Ga0307510_100538382F016903N/AMSTPSNFGLDDLYRTPVQTIVELEDEVMEEGEVSDSNPSIEEGQITDTRQSTPDSMDIGIPRVPSDWLQPASP
Ga0307510_100538388F016489GGALGGNLILYATLDIWETTSKGPYLLGDNLGVMLLGSRRFVPSSQTLDLTGNGEWRGRSLIQDSCALRCASWAAFLASSIDESRCSRDGISVFLVGWCT
Ga0307510_100538389F075486GAGGVPVVLLSATEYTEVLFESLVGSFAGSIRLRVIGCADVLVDV
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