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_10001906

Scaffold Ga0196962_10001906


Overview

Basic Information
Taxon OID3300024430 Open in IMG/M
Scaffold IDGa0196962_10001906 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)6851
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (90.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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 → 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?
F001183Metagenome / Metatranscriptome755Y
F001264Metagenome / Metatranscriptome735Y
F004047Metagenome / Metatranscriptome455Y
F006256Metagenome / Metatranscriptome377Y
F009555Metagenome / Metatranscriptome316Y

Sequences

Protein IDFamilyRBSSequence
Ga0196962_100019064F001183AGGAGLSEEQQRQRVRELVRKKTGMDWPELKVGDIEKAMSSVTLFYWCTKEDVGKRGRQKLLELTDEKPSPLP
Ga0196962_100019065F001264AGGAGMRAEQTVNEMAQEVLCRQARALAKRSGEPFVEALEAVLETPAGRQLEELRCGSHQHEEVRYWQANLLFERVSEQAGHPVHPV
Ga0196962_100019066F009555AGGMVQILERDEAHYEGREMPFGKVYEWHPAYVTLKCDCEEKVTLSATSTTTTCMGCGAELDTFVHAIREREGRLPDKLTHPWFYDARERAQQHKHDEAAYLEGSRWRYNDITAATNEE
Ga0196962_100019067F004047AGGAGMQQDQSVSEMAEEVLIRQAKSLAQRSGHSLEDARQAVSDTEAGRQLRDLAQGEHRHEKAKEWQGSVFWDRAEERFMHLVASEALSRFVADRHYSWLESYMEWLEGKEERAHYHALLEEELASLRG
Ga0196962_100019068F006256AGGAGGMRSEQAQIGAKVRVGYSGVHSEWQGLTGTVSARWGNPEYLALDVLLDDGRTLLFWHHELEEIAQGA
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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