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 Ga0209388_1005782

Scaffold Ga0209388_1005782


Overview

Basic Information
Taxon OID3300027655 Open in IMG/M
Scaffold IDGa0209388_1005782 Open in IMG/M
Source Dataset NameVadose zone soil and rhizosphere microbial communities from the Eel River Critical Zone Observatory, Northern California to study diel carbon cycling - Rivendell_Oct2014_Saprolite_2_DNA_Bulk_1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3186
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Archaea(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 NameEel River Critical Zone Observatory, California, USA
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F010455Metagenome303Y
F058863Metagenome134Y
F091702Metagenome107N

Sequences

Protein IDFamilyRBSSequence
Ga0209388_10057821F058863GAGGMIRPRLKYLILFLSLGLVASYVSVNVLTSYSYLPGGIAISNYGFLLPWETVSGTLCGQSPSQPHDAYSLLNGPCFASCCFTTYNLAFLLFDVLFYMGIGYLSLLSYHRLMRGIDRRASELVIESRQPMSVEEDDQSQDGSEEKA
Ga0209388_10057823F010455N/AVGKATRLGKDSELSPHDRAEKTLLAISELKRYLDGVEKDLSRMSKKYSSKEIAQGVGFAATGIHEALTYLGIVKKVIEKTERIIAKKNIASVNETNGVS
Ga0209388_10057825F091702GAGMFERELPRFVLDRGQRGLKASGTSDIRILRKPNTPLCDFCGEEFEDGEDAYRLAKGKVHYSVPSFVPETASVFFHQECWKKIALERKRGEANQPRPERRQ
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