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 JGI20277J16323_100974

Scaffold JGI20277J16323_100974


Overview

Basic Information
Taxon OID3300001647 Open in IMG/M
Scaffold IDJGI20277J16323_100974 Open in IMG/M
Source Dataset NameForest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF043
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)723
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
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)42.550409Long. (o)-72.180244Alt. (m)Depth (m)0 to .1
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004082Metagenome / Metatranscriptome454Y
F055935Metagenome / Metatranscriptome138N

Sequences

Protein IDFamilyRBSSequence
JGI20277J16323_1009741F004082N/AKHCRDPWLRMGSVVGMTFPLVGQPGHGRTAFVRRQPVRIVDGRVEGGYTDVFEFICPGCGDNPYVDYSEVPSRLQWLRGPLTLEAALEAYDKHLAPLPGPNGDSAGS*
JGI20277J16323_1009742F055935GAGGMGALFILCAIFVGLAVYRSGEARARWQSLRASRTTARNQRNTAWRHAGSAALYVVGAIFFLFIVLKLLK*

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