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_10000479

Scaffold Ga0307510_10000479


Overview

Basic Information
Taxon OID3300033180 Open in IMG/M
Scaffold IDGa0307510_10000479 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)39225
Total Scaffold Genes67 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)48 (71.64%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Agaricomycotina(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
F029295Metagenome188Y
F044236Metagenome154Y
F059500Metagenome133Y
F075486Metagenome118Y
F096296Metagenome104Y

Sequences

Protein IDFamilyRBSSequence
Ga0307510_1000047946F096296AGGAGGMDVDATVTSDINATAGGGQQHSEAKKAELMRSNLCFYCEKQGHQAKDCCKKQADRGNFSGQSNNPRELAKAHVAPTMPDIQNLDNFADYLKDNMDSFSEEARLGFVEKLMPKDFPEARN
Ga0307510_1000047951F059500GGAMSRVSVDFSHLTSSAAFDVLSYKDFHSGPPVVGQDKLEGFGNSGMSSGFVVVKKGCYSPPKVIVCHNNKCRSVVPVSAVQ
Ga0307510_1000047952F044236AGGVTPSELIASLQGIMMDAFEQSVLVIVRMVSYPPDRGNLVMKSIAMVSKGRVFSVGVIGNIGG
Ga0307510_1000047953F075486GAGGMPVVFLSATEYAKVLFEGLVSSFAGSICLRVIGCADVLVDIQDVA
Ga0307510_1000047954F016489AGGGGGLILYATLDIWETTSKGPYLLGDSLGVMLLGSRRFVPSNQTLDLTGNGEWHRHSLIQDSCALHCASWAAFLASSMDESRCSRDGMSVFLVG
Ga0307510_1000047955F029295AGGMVEVANPVLGSSWWTEDMVVGGEGCCLRFQGFLYCLVGFQSPLVTPEHGDPQS
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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