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_10009348

Scaffold Ga0307510_10009348


Overview

Basic Information
Taxon OID3300033180 Open in IMG/M
Scaffold IDGa0307510_10009348 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)11675
Total Scaffold Genes23 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (56.52%)
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?
F016489Metagenome246Y
F016903Metagenome243Y
F029295Metagenome188Y
F059500Metagenome133Y
F075486Metagenome118Y

Sequences

Protein IDFamilyRBSSequence
Ga0307510_1000934811F075486GAGGMPVILLSATEYMKVLLKGLVSLFAGSVCLRVIGCADVLADVQDAA
Ga0307510_1000934812F016489AGGGGGLILYATLDIWETTSKGPYLLGDSLGVMLLGSRRFVPSNQTLDLTGNGEWCGRSLIQDSCALHCASWAAFLASSIAESHCSRDGMSVFLVG
Ga0307510_1000934813F029295N/AMRMIPSSVPKVKMVEVVNPELGSSWWMEDMGVGNREGRLRFQGFLYCLVDFQSLLVDPKRGDPWS
Ga0307510_1000934819F016903N/AMMSPGRSPSQNSPALSTTSNFGLAGLYRTPVQTIIEVEDKFMEKGETTDLDSSMEEGQIADTKQSTPDSMDIGTPCVPSDWLQPSSP
Ga0307510_100093489F059500AGGTGGMSVDFSHLASSAAFDILSYKDFHSRPPVVGCDKLEGFGNSGMSSGFVVVKKGCYSPPKVIVCHDNKCCSVVPVSAIQ
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