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_16888636

Scaffold GPIPI_16888636


Overview

Basic Information
Taxon OID2088090014 Open in IMG/M
Scaffold IDGPIPI_16888636 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)3512
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales(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?
F000573Metagenome / Metatranscriptome1016Y
F005008Metagenome / Metatranscriptome415Y
F059396Metagenome134Y
F066540Metagenome / Metatranscriptome126Y

Sequences

Protein IDFamilyRBSSequence
GPIPI_00934270F005008GGAGMTTSKRQSHDKARRAGSEPNLGQKAAEREKKSKAQLSHMEGRRATSARGRFVAWCKQEQASIEQQLELMQSGKVLTGENRGSGWIDTTGESVKRAKARLAELESLLTEEGSATISKP
GPIPI_00934280F066540N/AMLDGAERRHHLARSWRATDDLHVEVEDGEVIVTLPGTRYAVRYYKPANSRQLHGKSFPEEVDRRSPISQAAFVGKAWKVANEKAKELGWIE
GPIPI_00934290F000573GAGGMLAWIRRIIVSLGIGGASYLIMLAFMILSVVYDKELEPVITFAFETGRRLVDLLDSWVAGTYWGQVAVNHLRERVNMTHVILSIPAIILAFILVGMPLSRVLGGTKSALQRMAIALISIPATVVLAVALFTFNALVPEMYAALLRFADWIWQGSLNALNNSGDMIPGARKLANLARQGFSGHHYVIMALCSSLAAFLVNAFFSLGRNSKKHFPRTRIEVATVPESYKAVLPSSENLTPTSHSEHRLMRFSLLTARYF
GPIPI_00934300F059396GGGGGMPALHELSDKELREKLSTGELSDKKVTIARAILRRRRQERFQAWIKRHVWLGAILAAIGLAGIFSLSKVGSEDVSEE
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