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 Ga0126307_10073745

Scaffold Ga0126307_10073745


Overview

Basic Information
Taxon OID3300009789 Open in IMG/M
Scaffold IDGa0126307_10073745 Open in IMG/M
Source Dataset NameSerpentine soil microbial communities from UC McLaughlin Reserve, CA, USA - Plot28
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2689
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae → unclassified Rubrobacteraceae → Rubrobacteraceae bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Serpentine Soil → Serpentine Soil Microbial Communities From Uc Mclaughlin Reserve, Ca, Usa

Source Dataset Sampling Location
Location NameUC McLaughlin Reserve (Lake County, CA)
CoordinatesLat. (o)38.8692Long. (o)-122.4283Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002921Metagenome520Y
F003935Metagenome / Metatranscriptome461Y
F006916Metagenome / Metatranscriptome362Y
F061596Metagenome131Y

Sequences

Protein IDFamilyRBSSequence
Ga0126307_100737452F006916GGAMKPRVRAQLHSSSARSSKIIKDHTQIETVVEVEGVGRLVLDVDSKGGYSLRAYPEDSEDPSRDLLAVGVMHADGIVAIHPQGFSAVDG*
Ga0126307_100737453F003935AGGAGMDDEMLPKIDYYIDQSDPDVVIPRRQDGSFVAAFSARGATREGIVEAAKEDYRKVIEANAESLGLREEGDRLKSA*
Ga0126307_100737454F061596GGAGVEHYEWMNDQVRKEIEVLQRSYGFDEDEALAYWHLRHAGTLLLAMRRADAPERAEEGEESVRLARMIHGRAQIESNIVQHLSALRRELGDRVLRRNYPEGWGTEHKGLDE*
Ga0126307_100737456F002921AGGAGMDTTESSAPHAHPSTEDYDDTVEAHYACLERPCACLEGWVFVGYIDENGEEREASYACWRCADSR*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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