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 Ga0063356_100047795

Scaffold Ga0063356_100047795


Overview

Basic Information
Taxon OID3300004463 Open in IMG/M
Scaffold IDGa0063356_100047795 Open in IMG/M
Source Dataset NameCombined assembly of Arabidopsis thaliana microbial communities
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4287
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (50.00%)
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 → Hyphomicrobiales(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Arabidopsis Thaliana Rhizosphere → Arabidopsis Thaliana Rhizosphere Microbial Communities From The Joint Genome Institute, Usa, That Affect Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: Walnut Creek, California
CoordinatesLat. (o)37.931388Long. (o)-122.021761Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000982Metagenome / Metatranscriptome814Y
F004285Metagenome / Metatranscriptome445Y
F101460Metagenome102N

Sequences

Protein IDFamilyRBSSequence
Ga0063356_1000477952F000982GAGGMPSIRSSSRATNLLQHHRGRGRAYPTPRYWERLYQMLEEEAEKRGKTPPPPPLTHGLDHDPTEEDKVDRLREQLNWADHNNLLHRIQMFFDAMPPSGWEKLS*
Ga0063356_1000477953F101460N/AMAAVHIRMKLLPLFAIASVASAAETLPASGTLDCDDSRRVACEFVDPASGLRVRLPHDWPMRRLRVSTETGPSAGVRQPFAERWVAIDYVPEEPALPEVSLFHAAVLPRAAWLRWSESRAAAPVVEVAASQSRAVVAAQERAHPYPSGSRDAQIFEALMPSLEEISLILTLRQP*
Ga0063356_1000477956F004285AGGAGMSRSWISNRSMRVSPRVKLVDDGAAEALRRKLESLEWRPQNGFLKDQVFDKSELTFARETRAA*
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