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_10034281

Scaffold Ga0307510_10034281


Overview

Basic Information
Taxon OID3300033180 Open in IMG/M
Scaffold IDGa0307510_10034281 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)5686
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (57.14%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Associated Families6

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?
F016903Metagenome243Y
F028665Metagenome190Y
F028977Metagenome189Y
F029295Metagenome188Y
F044236Metagenome154Y
F059500Metagenome133Y

Sequences

Protein IDFamilyRBSSequence
Ga0307510_1003428114F016903N/AMLKRLPTPSELSTPSSLGLGSLYRTPVQTIVELEDEQMEEGETTDSDSSMEEGQIADTRQSTPDSMDIGIPRVPSDWLQPDSP
Ga0307510_100342814F059500AGGGGGMSVDFGHLAGSAAFDVFSYEDFHSGPPVVGCNKLEGFGNSGMSSGFVVMKKGCYSPPKVIVCHDNKCGAVVPVSAVQ
Ga0307510_100342815F044236N/AMKTDAFEQSVSVMVRIVSYPPESGSLVMKSIATVSKGRAFSAGVIGNIGG
Ga0307510_100342816F029295N/AMRITPSSVPREKMVEVANPELGSSWWIEDMVDRGVRLRFQGFLYCLVDFQSLLIDPMHGDPRS
Ga0307510_100342817F028665GGALIHSSRFFLSDMEEVVWGNESGVGVGFGLIVFNLFCGSEGVWVGDVEWNVFRFLGSAATVASSANGDNVEWSCGSGLVSRGVRCEWESFVVDMGSEDRVIVVDWDHDGFVVDVNGVEGLSWSPSSPVVRDVKVSTSDKCSEEVEMVVVGVHANENNSVIGTKGKDGRGGES
Ga0307510_100342818F028977GAGVEVVEVKGGSTVFLSEGSCDNNVLEFVFEIDPFVIESDHVFDTFLTLLLERYGGGGLGE
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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