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 Ga0150985_109215269

Scaffold Ga0150985_109215269


Overview

Basic Information
Taxon OID3300012212 Open in IMG/M
Scaffold IDGa0150985_109215269 Open in IMG/M
Source Dataset NameCombined assembly of Hopland grassland soil
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1688
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
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 → Rhodospirillales(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Unclassified → Unclassified → Avena Fatua Rhizosphere → Avena Fatua Rhizosphere Microbial Communities From Hopland, California, Usa

Source Dataset Sampling Location
Location NameHopland, California, USA
CoordinatesLat. (o)38.972988Long. (o)-123.116539Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005983Metagenome / Metatranscriptome384Y
F006433Metagenome / Metatranscriptome373Y
F007657Metagenome / Metatranscriptome347Y

Sequences

Protein IDFamilyRBSSequence
Ga0150985_1092152692F007657N/AMNWVTFEVVGGGLVAVQLHHIVAVYDEQGTVKMATTASGVHVLKDTTVQRAVMVISAASDAEAARSG*
Ga0150985_1092152693F005983GGAGMQTAEYDGQIAYDLEEFCKDYGHPSGQMFTFEITCNAVTYVYANVIGTVRASKVIFDLSGEDLVSTRKAH*
Ga0150985_1092152695F006433GAGMADAIYQVIHRDDDSFSVEITRSGVLPQTAVGFATEAEANDWIAQDKRLWRGARPFR
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