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 Ga0307507_10000462

Scaffold Ga0307507_10000462


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000462 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 7_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)85103
Total Scaffold Genes32 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)22 (68.75%)
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 → Ascomycota → saccharomyceta → Pezizomycotina(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)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000630Metagenome971Y
F002220Metagenome581Y
F003725Metagenome471Y
F020829Metagenome221Y
F021494Metagenome218Y
F047603Metagenome149Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000046212F003725N/AMLINLYANLKEIAKLVQEQIKRYYNAKRSKGPDLKEGDKMWLLYKNFKS
Ga0307507_1000046215F020829GAGGMSPNRIDSVPLVSSKLITNIIFSICGTPLTLRLYILIIYTSPLYVWIIITVISKLTACYNYKDGLIALLIIKHTYIAAFGLYRS
Ga0307507_1000046216F021494GAGMSYVPTSASISKFVIVSSSSPILTSRLYALYRLAVNIIFTALSLILNYPSLKLAIAVHGGLPIGRPLPCVFYNPCVPIWSGNITQRRF
Ga0307507_1000046218F002220AGGMHPLKSNGVIKLSFSFSFTIRFAFTSSSFLRAKNWSSSKIIILLVYILTIPNGVPIVVIKKQGLNIEVVIKSFSL
Ga0307507_100004625F000630GAGMGVKGIEADLGKRNLSCSIVNAIGGKHLRALRRPNKGRKYNGNTFKNRNNRTKRLALLGRCPSR
Ga0307507_100004627F047603AGGAGGVWLLYKNFKSRRLSKRLVYIRLRLFIIKAKILEVIYRLNLLEKIKIYPI
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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