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_10000686

Scaffold Ga0307507_10000686


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000686 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)74004
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (42.86%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Associated Families5

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
F002793Metagenome529Y
F003725Metagenome471Y
F081096Metagenome114Y
F084969Metagenome111Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000068613F084969N/AMPLKALVITPSTAATTLGTSGDTSIRDTDSQLVTVR
Ga0307507_1000068618F003725N/AMETLINLYNYLKSMAKLVKERIKKYYSTKRSKGPDLKEGDKV
Ga0307507_1000068619F002793N/AMDIIPLVDNLEILEIFKDKDKEEGDSVMDTLSTIL
Ga0307507_100006866F081096N/AMHIYGGGYRGNTGQSDKDSTVRDIGQLIERGDTSLVSRRGGSRLPGTGPISMAPSCKI
Ga0307507_100006867F000630GGAGMGVKGIEADLGKGNLSRSIGNTIGGKYLRAPRGPNKGRKYNSNTLKDRNNRTKKLASLGRCPSR
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