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 Ga0307505_10000002

Scaffold Ga0307505_10000002


Overview

Basic Information
Taxon OID3300031455 Open in IMG/M
Scaffold IDGa0307505_10000002 Open in IMG/M
Source Dataset NameSoil microbial communities from Populus trichocarpa stands in riparian zone in the Pacific Northwest, United States - 23_S
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)478619
Total Scaffold Genes345 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)217 (62.90%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Soil And Ectomycorrhiza Microbial Communities From Populus Trichocarpa Stands In Riparian Zones In The Pacific Northwest, United States

Source Dataset Sampling Location
Location NameUSA: Washington
CoordinatesLat. (o)48.4473Long. (o)-122.323Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001123Metagenome / Metatranscriptome770Y
F001316Metagenome / Metatranscriptome724Y
F001576Metagenome / Metatranscriptome669Y

Sequences

Protein IDFamilyRBSSequence
Ga0307505_1000000222F001316N/AMKVLLLIIGLMLATAGGVITFRALYVEPRSAVIITETEIRQLPNYTRVVGGALLFVGGTALALFAATRKVK
Ga0307505_10000002237F001123GGAGGMKNDIINEENAGLKNANGAEEMKKAFVEPAISVPVDVLEATTFFQAASSGATN
Ga0307505_10000002238F001576AGGAVKLIVYRDYARTATFLALAILVSFTIARSQPATHPQDAKAPAKDAAAQDKKAPKPGFAWTIKTRPILNLTLKAEKAKMAEVAQALSEKLKIPVFLGPERQKELISIEFSELTLEPALQLLSPTVYVDYELDTGSMNPPKPLGIFFYDTNQGEPPVTAVVTGTNQAMLIEGNTEDGVEPATEEEKKRLEEQPLRVRYENALLSVKAKQQPLPVVLLKIGEELGIPVDIQNERLDPIDADISKLPIEDVARQLSPHIKLYYRADLTRAEKRALRMVLAEPPKTTQGP
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Institute for Fundamental Biomedical Research
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