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 Ga0058901_1569245

Scaffold Ga0058901_1569245


Overview

Basic Information
Taxon OID3300004120 Open in IMG/M
Scaffold IDGa0058901_1569245 Open in IMG/M
Source Dataset NameForest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaT HF238 (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)826
Total Scaffold Genes2 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → environmental samples → uncultured bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Forest Soil → Forest Soil → Forest Soil Microbial Communities From Harvard Forest Long Term Ecological Research (Lter) Site In Petersham, Ma, For Long-Term Soil Warming Studies

Source Dataset Sampling Location
Location NameHarvard Forest LTER, Petersham, MA, USA
CoordinatesLat. (o)42.531427Long. (o)-72.189946Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009021Metagenome / Metatranscriptome324Y
F055935Metagenome / Metatranscriptome138N

Sequences

Protein IDFamilyRBSSequence
Ga0058901_15692451F009021GGCGGVSSPGDPDTMTSNGPRVRLAVVPALRLKHRRDPWLRMGSVVGMTSPLVGRPGHGRTAFVRRQPVRIVDGRVEGGYTDVFEFICPGCGDNPYVDYSEVPSRLQWLRGPLTLEAALEAYDKHLTPLPGPNGDSAGS*
Ga0058901_15692452F055935GAGGMGALFILCAIFVGLAVYRSGEARARWQSLRASRTTVRNQRNTAWRHAGSSALYVVVAIFLLFIVLKLLK*
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