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 Ga0137370_10023480

Scaffold Ga0137370_10023480


Overview

Basic Information
Taxon OID3300012285 Open in IMG/M
Scaffold IDGa0137370_10023480 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from Sagehorn Ranch, Mendocino, California, USA - Sage1_R_20_16 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3125
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (62.50%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria 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
CoordinatesLat. (o)39.5673Long. (o)-123.4758Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F021424Metagenome / Metatranscriptome219Y
F080438Metagenome / Metatranscriptome115Y
F086069Metagenome / Metatranscriptome111Y

Sequences

Protein IDFamilyRBSSequence
Ga0137370_100234801F086069N/AMITLEKPASTWSSDQGALTVYHLGKTISLGRYATHDFAAKAAAAYFAKHQARKEPSALRRASAFAGMLSKK*
Ga0137370_100234802F080438AGGCGGMYSPKLLRVEAAECRRGAMGKSARVERTLLALAERLESQATVLEARKPAELPRRQEIMRILPRSQQHH*
Ga0137370_100234804F021424AGGAMTNLDGCEITVPIVGGIFCVGRLATKLKALADTEQIGPWHIGQWTDFKHTAIRMRFASIADGERAKETCTGAAN*
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