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 Ga0099828_10005427

Scaffold Ga0099828_10005427


Overview

Basic Information
Taxon OID3300009089 Open in IMG/M
Scaffold IDGa0099828_10005427 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con2H1.8 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)9141
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

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, Eel River Critical Zone Observatory
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005371Metagenome / Metatranscriptome403Y
F007323Metagenome / Metatranscriptome353Y
F040253Metagenome / Metatranscriptome162Y

Sequences

Protein IDFamilyRBSSequence
Ga0099828_100054273F007323AGGAGMWRRLVWVENQKLQGFGCSECNWVFNPSGAPVGESLDEMKQKYEAQCDKEFAAHVCAEHPRAASAKTR*
Ga0099828_100054274F005371N/AMRFLAKSRIGTLWVVVAASSALFAQNNGLDKHQNHASVLDASQIVAPSLAATERSWEARGHYTYMERDEDRRLDSQGLVKSENVDITRMMLVNGARFEQLLEHNGQLPSATDQRKSDEDLNKLKHETPDEQTARLRKDQESRSFLRDVLEAFDFQLIGEEVVDGRPAYVLQATPHPGYHAHGKYGKMFSKVEGKLWVDMQNFGWIKVDGQVTQSFSMGLFVARVQPGSHIILDQTCVGDAVWVPKRLEVRASARILFLKSLDLDRILTYSDYRPAADGLYSVSR*
Ga0099828_100054276F040253GGAMKKKARKELSEATLASVKKEMAKPRMANSARQEKVNLASARIAPGKL*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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