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 Ga0209590_10111103

Scaffold Ga0209590_10111103


Overview

Basic Information
Taxon OID3300027882 Open in IMG/M
Scaffold IDGa0209590_10111103 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con1.8 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1653
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium(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?
F019704Metagenome228Y
F073304Metagenome120N
F093562Metagenome / Metatranscriptome106Y

Sequences

Protein IDFamilyRBSSequence
Ga0209590_101111032F019704GGAGGMKRRTRVKELMQREGLRGEIVQLFHSRRTGMIHGYDGYDVTFNEESLVVGLSYGELSLGLKVSYGIFFATGAKLPTGINVQPAVGGPTATSEDAENVISARADGTAVM
Ga0209590_101111033F093562GAGGMSVRSRLLAEAEKQISNPFLLCALVSLRTRQLMMTGNANTSTAQLVDSALNELIAGVLEFEHGKPRRPPLIRAESRNEGSNGGLESPGVPELSRTLSAEAP
Ga0209590_101111034F073304GAGGMATRSWHSRGLPTWRIWLISRLGRLRNIKNLAPGELPFAGGLVLLLAASMLWRAFPMAVTGGGLVLILQEIADPSPLFLAVPWEALEFVLSRKVRANHFWLHRTQGLLRESGDSLAKIAGCATRDGFFLIGAAFNEAQIQWASQSAWPATCQKPSAKEAATGCKTMQFLLALWLIAGGLAALSLFRGVDLGSGLLLCALCGAAGQLLARPVEKLLGPWAGRVACSNKETWPSRLEVESLAIPRFLWFKRSLVFQVRRRPARESNEG

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