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 Ga0307498_10001405

Scaffold Ga0307498_10001405


Overview

Basic Information
Taxon OID3300031170 Open in IMG/M
Scaffold IDGa0307498_10001405 Open in IMG/M
Source Dataset NameSoil microbial communities from Populus trichocarpa stands in riparian zone in the Pacific Northwest, United States - 12_S
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3571
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (87.50%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
Not Available(Source: )

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: Oregon
CoordinatesLat. (o)45.654Long. (o)-122.839Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F019179Metagenome / Metatranscriptome231N
F047523Metagenome / Metatranscriptome149N
F048509Metagenome / Metatranscriptome148N

Sequences

Protein IDFamilyRBSSequence
Ga0307498_100014051F019179AGGAGGVRALTSTQSHRNSSRGLIAGGVLALTLSAQTGAVAQVNTPPANTQVIAPKQVGSWTVIGWSQGYCAGERPLPGAAGGGATLQFVLARFQAGYRLALGSQEWELKPQTTFPIELIAQPVLRSDASAIVVGPKLVVIELGADGQFVRKLASVPMIEVKAAQATFKLPLEGFAEALTEVDACFAALKRPVSNPFAAPEGKPAALPK
Ga0307498_100014054F048509GGAGGMTNGIAQVVIGIALAAAIGGVAALNPGYKPHEDVAYLERVATTVERAKVLAPETREQLSKLTSRYETLLSDAQLDLKRQKALGRIRTVVLRSMD
Ga0307498_100014057F047523GGAMAGFITGLKSVEEVEAGIFEVVVILQRGATAKLRMNAFTFQAFVTRFIHTPRPQRWLDRLIYLLKKLFRPVGIRAPFRYSRTRQ
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Institute for Fundamental Biomedical Research
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