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_10001125

Scaffold Ga0307510_10001125


Overview

Basic Information
Taxon OID3300033180 Open in IMG/M
Scaffold IDGa0307510_10001125 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)28653
Total Scaffold Genes43 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)27 (62.79%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
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?
F006648Metagenome367Y
F011464Metagenome290Y
F016489Metagenome246Y
F029295Metagenome188Y
F044236Metagenome154Y
F059500Metagenome133Y

Sequences

Protein IDFamilyRBSSequence
Ga0307510_1000112513F011464N/AMLINGLDARPKRIWSGDIVDDHFLDRLCDIFPGSQGCRFPGSHADKSRDVQVVKGAHDESRVGSCDMFPRSRDAEVTGL
Ga0307510_1000112522F059500GGAMSRVSVDFSHLASSAALDVLSYEDFHSGPPVVRCDELEGFGNSGVSSSFVVVKKGCYSPPKVIVCHDNKCHSVVPVGAVD
Ga0307510_1000112523F044236GAGVLVIVRMVSYPPDRGSLVMKSIATVSKGQAFSVGVIGNIGG
Ga0307510_1000112524F016489GGAVGGNLILYATLDIWETTSKGLYLLGDNLGVMLLGSCRFVPSNQTLDLTGNGEWRGRSLIQDSCALRCASWAAFLASSIAESRCSRDGMSVFLVG
Ga0307510_1000112525F029295GGAMIPSSVPKVKMVEVVNPKLGSSWWIADMGVGDRDSRLRFQGFLYCLVDFQSPLVDPECGDPWS
Ga0307510_100011258F006648GGAMMGLHACKTLVGIIKDVEESLDDVRDDLHGVRAKTEGAVEATTLGIKPSQA
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Institute for Fundamental Biomedical Research
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