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_10000579

Scaffold Ga0307507_10000579


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000579 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)78586
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (65.38%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (33.33%)
Associated Families5

Taxonomy
Not Available(Source: )

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?
F006298Metagenome376Y
F007022Metagenome359Y
F007161Metagenome356Y
F024756Metagenome204Y
F027375Metagenome194Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000057912F006298N/AMEHRLVIKNSDSLCAIYLTILSKVLVRRVVLNFHIYKELFNLINLTLKVFYAFVLNQEALEVGRSDLAISDVSYTLTELIIYLFSFIKGVSS
Ga0307507_100005792F007161AGCAGVPYYLINRYKLDRGIVLKLGLKVPLGIPYGLTKEVEHFSFFKKEIVVVNTELSLYLNPPILKGRVYPIRQ
Ga0307507_100005793F007022N/AMCYNCNKEGYFALSCLELGDIKEIEEGKTSNKLGKEEP
Ga0307507_100005796F007022N/AMVTCFNCGKNSYFTISYPELKDMGNIKEIEEEETSNKLRKEKP
Ga0307507_100005798F027375N/AVLLNTVPLLDIVPLGIPNRSHRSKNRSASFAAVIIIKIAKYPKNFVYLLTITKIALATSPVLILVGGKPVIKFIINSNMGPYRIGSTDNSLYRRCLGIYTL
Ga0307507_100005799F024756GGAMPIHSIAHCTTVGESAGTNSLKHLVPRLEFIIAAGEMEISNLYKTFLDLLL
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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