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 Ga0099829_10006072

Scaffold Ga0099829_10006072


Overview

Basic Information
Taxon OID3300009038 Open in IMG/M
Scaffold IDGa0099829_10006072 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con2H2.8 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7421
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (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(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: California, Eel River Critical Zone Observatory
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000232Metagenome / Metatranscriptome1513Y
F031940Metagenome / Metatranscriptome181Y
F046930Metagenome150Y
F051726Metagenome143Y

Sequences

Protein IDFamilyRBSSequence
Ga0099829_100060726F046930GGAVPGLISIISALALLLTGAWLLQDGVSGRDLSQIETIAGAALLSVGVVSSVLLLRGWIKWKPELAKYREG*
Ga0099829_100060727F051726GGAGMSIKERQVYRCQNRDCGCEIVVTKTTVETKANLRCFCGAEMKKLYSPPVFRMLDPDDELVSRLEADRNLTS*
Ga0099829_100060728F000232N/AMKHPKQTKRAPPTRPSALAVPSYHRILVKHGLIEKTLSIPDAYEMFLKVGADPEVQILRRKVAHGHRMKHVPALYLATAMALQGMTKQELEALKLRMEEKRV*
Ga0099829_100060729F031940GGAMRMPFCILNVLGDVLDDGELYFVEAAQSLDAARARVESLAESLPGEYIIYDVATGERVSITAVGKLH*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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