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 GPIPI_16522855

Scaffold GPIPI_16522855


Overview

Basic Information
Taxon OID2088090014 Open in IMG/M
Scaffold IDGPIPI_16522855 Open in IMG/M
Source Dataset NameSoil microbial communities from Great Prairies - Iowa, Native Prairie soil
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusDraft

Scaffold Components
Scaffold Length (bps)18393
Total Scaffold Genes28 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)19 (67.86%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Grasslands → Soil → Soil Microbial Communities From Great Prairies (Kansas, Wisconsin And Iowa)

Source Dataset Sampling Location
Location NameUSA: Maryland: Natonal Institute of Health
CoordinatesLat. (o)39.0042816Long. (o)-77.1012173Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F054383Metagenome / Metatranscriptome140Y
F068973Metagenome124Y
F090914Metagenome / Metatranscriptome108N

Sequences

Protein IDFamilyRBSSequence
GPIPI_02218370F068973GGAGVTQISEFNTVLNQVLTLTDATTSECALLSPESVERHRCEGKLLALHQVIGFFLEIDRRTFGAKG
GPIPI_02218380F054383GGAGVTKVLKKKRDEAKQAWENATVVMKKEKKPDDFTGSKKAHDEAEKLRVEYLMAQRSSEADSEDENRLAMSAHR
GPIPI_02218480F090914AGGAGGMIRNLFVGASLAGLLTLGAGTAVRTANAQDPADKQEQQASKTISGKVAAIGNGGHSFSLEVTGENKNTMNFVVDKNTQVNGQVREGTAVTVQYQAMANGQNLAVSITAQA
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