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 Ga0209674_100041

Scaffold Ga0209674_100041


Overview

Basic Information
Taxon OID3300025226 Open in IMG/M
Scaffold IDGa0209674_100041 Open in IMG/M
Source Dataset NameArabidopsis root microbial communities from North Carolina, USA - plate scrape CL_Cvi_mMS_r2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)396231
Total Scaffold Genes382 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)269 (70.42%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Roots → Endophytes → Unclassified → Arabidopsis Root → Arabidopsis, Maize, Boechera And Miscanthus Rhizosphere Microbial Communities From Different Us Locations

Source Dataset Sampling Location
Location NameUSA: North Carolina
CoordinatesLat. (o)35.6667Long. (o)-78.5097Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F024826Metagenome / Metatranscriptome204Y
F040712Metagenome161Y
F052031Metagenome / Metatranscriptome143Y

Sequences

Protein IDFamilyRBSSequence
Ga0209674_100041122F052031GGAGMTIDRHATHPATTEHHEEIVQFVFRSAASSGLLDRARALLDAAPRELAESFEQAVRTSGLAS
Ga0209674_100041212F040712N/AMAGRSAARQNGLLLIRLTASMSLRCFIVRRCLHASLEAAGLRAVNLPLVVDARRHVHPPVPIDAGYLVVDRRAFARITFPRANGDAAAPMQTVGFASLSGVLRAICSERIGIAGRAAIPGPKRALELRREGRWSEVLEASERVEAPMRRRLDAWLRGWRFAAWRFALRAFKRL
Ga0209674_100041229F024826GAGMADATPYFGIAPFVLGMTRELARAAAGKPDSVESTPDDDGFAVETWFYDGGEIELEFDPAPDAKLESITAWSAKTTVNGVAIIGAEVADLQRLAKEADIHDLALTDDFADSGQCWQSEQHGLMFWAAKGKVVNMTIFPRFDDSGEEPQWPE
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Institute for Fundamental Biomedical Research
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