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_10000255

Scaffold Ga0307510_10000255


Overview

Basic Information
Taxon OID3300033180 Open in IMG/M
Scaffold IDGa0307510_10000255 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)48481
Total Scaffold Genes83 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)53 (63.86%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

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?
F006648Metagenome367Y
F011464Metagenome290Y
F044236Metagenome154Y
F054462Metagenome139Y
F055313Metagenome138Y

Sequences

Protein IDFamilyRBSSequence
Ga0307510_1000025528F044236GGAGVSVIMRIVLKPPDCGSLVMKSIVTVSKGCALSAGVMGNIGGWVG
Ga0307510_1000025543F011464N/AVLINGLDARPKCVLSCDIVDDQFLDRSCVIFPGSWGCRFLGSHAKKSHDVQVVEGSRDESHVGSCDMFPRSHDAEVTGL
Ga0307510_1000025548F055313N/AMAVLFVVDRVLMRMVVGREAWWGGKEVLEGGDVDCRIEYRERSRSG
Ga0307510_1000025556F054462GGAMYAFRQCINSALQQKLVALSPQPATLPDLVDKAQDLDRSFCMFTPRSYTPSTGGCRRGCFTPQIRAIEEEPTTEINVTCGRGQFQGHSCGTSFHQGKLSPKERECHFREKLCMYCGKPGHIATNCNLGKRPGTSLHQMDSIPEDSMDKISIHDSVEANELSTTYFAPINMDITLKILSIFNMDPLDIDMAHINHLSF
Ga0307510_1000025566F006648GGAMMGLHACKTLVGIMKDVEESLDDARDDLHKVRAKTEGAVEATTLGIKPSQA
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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