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 Ga0196962_10001713

Scaffold Ga0196962_10001713


Overview

Basic Information
Taxon OID3300024430 Open in IMG/M
Scaffold IDGa0196962_10001713 Open in IMG/M
Source Dataset NameSoil microbial communities from Anza Borrego desert, Southern California, United States - S3+v_20
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7287
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (92.86%)
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(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Sand → Desert → Soil → Systems Level Insights Into Methane Cycling In Arid And Semi-Arid Ecosystems

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)33.305Long. (o)-116.2547Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F007136Metagenome357Y
F036415Metagenome / Metatranscriptome170Y
F051754Metagenome143Y
F054580Metagenome139Y

Sequences

Protein IDFamilyRBSSequence
Ga0196962_100017131F036415AGGAGVVEEGVRKENPVSEGRLQKYRAGDEIDMVVHIEHAPMHLREVSARFFSNGQEEGAIISHMDLSGTPSPRSEDQPVQLKGVLHSEVRLSARVAPDGTPGLYRLNRVTVKTYGGREHHYSAEELGEMGFEIVEEPDNRPVVLQIEMGFRTEY
Ga0196962_1000171311F051754GGAGGVSERHIDAEGERRLIEAGFVPEESRLGKRRWKDPDTGRTMPGGAALDRVERREEQELEDEGWERVEAQGTMVFWRRPNTGHLYPRGAAYDVHKRGDKG
Ga0196962_1000171313F007136GGAGGMAVSISARTLDYFGLLVGASVVALLSGVLTALCIKYEQRTLAWFWAASFFGSALVGAYCLWKLL
Ga0196962_100017139F054580GGAGGLAKCAGITQAGAACKGIPIDGSQWCYVHHPDRTEERRRYGLKGGRRGGRGRPSAELARLQRRFEELADAVLSGEIERGVGAVAGQLLNGARACVRDALAAREAEELEARLEQLEEALGHDEGGSRSWGA
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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