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_10000350

Scaffold Ga0307507_10000350


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000350 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)94019
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (50.00%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (42.86%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta(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
F039539Metagenome163Y
F050927Metagenome144Y
F067281Metagenome125Y
F074608Metagenome119Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000035015F002220N/AMESLFRERMHPLKSNGVVKLSFSFSFTIRFAFTSLSSLRAKNWSSPKIIILLVYMPTIPNGVPVVVIRK
Ga0307507_1000035016F074608N/AMKRRLVIKDSNGLCAIYLTILSKVLVRRVVLNFYIYKELFGLVNLTLKIFFAFILN
Ga0307507_1000035022F000630GGAGMGVEGTEADSGKRNPSRGMVNAMGGEHLRAPRRPNKGRKYNSNTLKNRDNRTKRLALLGRCPSR
Ga0307507_1000035024F039539N/AMIDIVNLLEDNTPAELYGLLLLDFKKFIKLKKEFTNKELCKLLPKRYYNFINIYL
Ga0307507_1000035025F000630GAGMGVKGIEANLGKRNPSYGIVNAIGGKHLRALRRPNKGRKYNSNTLKNRDNRTKRLALLGRYPSRQPKI
Ga0307507_100003505F050927N/AMLEYLATRKKGIVYFIYKAPPLLSIDADKKIVRKVINWYMLKVSNIYAEYILYLYI
Ga0307507_100003506F067281AGGMQSIYYTYTSSRFNSYSIKLVTLRLHNYSFLEKTIIRRIEKHFIKHLNIAALDTASTPIRIC
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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