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 Ga0137383_10000585

Scaffold Ga0137383_10000585


Overview

Basic Information
Taxon OID3300012199 Open in IMG/M
Scaffold IDGa0137383_10000585 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from Sagehorn Ranch, Mendocino, California, USA - Sage2_R_40_16 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)19292
Total Scaffold Genes45 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)24 (53.33%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi 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?
F004381Metagenome / Metatranscriptome440Y
F014965Metagenome / Metatranscriptome258Y

Sequences

Protein IDFamilyRBSSequence
Ga0137383_1000058510F004381N/AMKVHDRVELPEPVTIVGDTVHEVLLVARLTTPVKPFELVTVTVDVAAVPALTAMLVGLADIVKSWTV*
Ga0137383_1000058511F014965N/AVDVPEPVTLAGVSVQVRPVVGEIVAVRLTNPLKPCRAVIVIVEVPAVPALVETDVELVATVKSCTV*
Ga0137383_1000058520F014965GGAGGVTLVGVRMQVRPVEGESVAVRLTTPLKPCRALTVIVEDPEALPSTVTTVGLAAMAKSWTVYVTVAE*
Ga0137383_1000058538F014965N/AMYEPALPVQESVEVPEPVTLVGVRLHVNPKVGEIVAVRLTTPLKLWRAFRVIIEVPAVPALMVTDAGLASMVKSWIT*
Ga0137383_100005858F004381AGGVEAVVNVHDTVALPEPVTPVGLTVHEVLLVVRVTTPLNPWSPATVIVEVPALPTLTVTVVGLTVNVKSWTANVTVAE*
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