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_10001856

Scaffold Ga0307507_10001856


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10001856 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)46172
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (75.00%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Associated Families6

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?
F000247Metagenome1464Y
F000630Metagenome971Y
F002555Metagenome548Y
F003725Metagenome471Y
F014479Metagenome / Metatranscriptome262Y
F038017Metagenome166Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100018561F000630GAGMGVKGTKVDLGKGNLSYSIGNAIGGKYLRALKGPNKGRKYNSNTLKDRNNRTKRLALLGRCPSG
Ga0307507_1000185611F038017GAGVVRLTRYRFKLKNKDKLRVNLKYVAHYTLLWIACVDNMYNMYRAPKDKN
Ga0307507_100018564F014479N/AVGPEGFWLLSGGVISVIEGVCVFLSGNCRCARVFELLVHLGVRARLAVLSRGLYCRNLLLLKGPSYLNITAFYKVSVEFPFRLSRDF
Ga0307507_100018565F000247AGGVRTNIIYITLSCKRTPHIEVAYTNCLISSLNTSIGKTPVPSSSVPFTHPSTGGKPYYNSGLSLNRSIDPTSIGL
Ga0307507_100018568F002555GGAMLGIFKDKDEEEGDGVMDALSTVLQLLREESAEASWLI
Ga0307507_100018569F003725GGAGMNLYVDLKETAKLVQERIKRYYNAKRSKGPDLKEGDKVWLLHKNFKS
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