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_10048563

Scaffold Ga0307510_10048563


Overview

Basic Information
Taxon OID3300033180 Open in IMG/M
Scaffold IDGa0307510_10048563 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)4526
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
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?
F011464Metagenome290Y
F016489Metagenome246Y
F016903Metagenome243Y
F028665Metagenome190Y
F028977Metagenome189Y

Sequences

Protein IDFamilyRBSSequence
Ga0307510_100485631F011464GGALLIVPMICHVLINGLDARPKRVLSCDIVDDQFLDRSCVIFPGSQGRRFPGSRADKSRDVRVAKGSRDESHVGSCDMFPRSRGLGVTSL
Ga0307510_100485633F016903N/AMLSTPSSFGLGDLYRTPVQTIIELEDELMEEGETTNSDSSMEEGQIVDTRQSTPDSMDVGIPCVPSDWLQPDSP
Ga0307510_100485636F028977GAGVEMVEIEGGSTVFLSEDSCNSSVLESVIEVGPFVIESDHIFDTFFMLLLERCGEGGLGG
Ga0307510_100485637F028665GGAGVVWGDKSGVGVGFGLIVFNFFCGSEGVWVGDVEWNVFRFLGSAATVASSANRDNIEWSCGSGLVPRGMGCEWESLVVDVGSEDRVIVVDWDHDGFVVDVNGVKGFSWSPSSPVVRDVEVSTSDKGTEEVEMIVVGVHANENNSVVGTKGEDGRGGES
Ga0307510_100485638F016489AGGGGGLILYATLDIWETTSKGPYLLGDSLGVMLLGSRRFVPSNQTLDLTGNGECRGRSLIQDSCALRCASWAAFLASSIAESRCSRDGMSV
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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