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_10000402

Scaffold Ga0307507_10000402


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000402 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)90021
Total Scaffold Genes32 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (40.62%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

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?
F000630Metagenome971Y
F004663Metagenome428Y
F009949Metagenome310Y
F015182Metagenome256Y
F032490Metagenome179Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000040225F032490N/AMLNLKNNLMPILNPQRQLIPGGFNLLALALTPKGKPSSLKDYNNLNKVDINNILSFINYITIDK
Ga0307507_1000040227F015182N/AMAGGYITKVISNFFKKIFLVFSIILSKDFSIFLEFNIELIK
Ga0307507_1000040229F009949N/AMVNAIGGKYLKALRRPNKGKKYNSNTFKNRDNRTKRLALLGGYPSR
Ga0307507_1000040231F000630GAGMGVKGIEAVLGKRNLSRSIVNAIGGKYLRAPRRPNKSRKHNSNTLKNRNNRTKRLALLGRCPSR
Ga0307507_1000040232F004663AGGVLKESRLGSINKEKSPKNKLPKGDLRGAIAKLLRVVSLIGGKSILLLPSLDRPY
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