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 Ga0126371_10000029

Scaffold Ga0126371_10000029


Overview

Basic Information
Taxon OID3300021560 Open in IMG/M
Scaffold IDGa0126371_10000029 Open in IMG/M
Source Dataset NameTropical forest soil microbial communities from Panama - MetaG Plot_4
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)93987
Total Scaffold Genes107 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)79 (73.83%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Tropical Forest Soil → Tropical Forest Soil Microbial Communities From Panama Analyzed To Predict Greenhouse Gas Emissions

Source Dataset Sampling Location
Location NamePanama
CoordinatesLat. (o)9.1086Long. (o)-79.8436Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000622Metagenome / Metatranscriptome980Y
F000997Metagenome / Metatranscriptome810Y
F008194Metagenome / Metatranscriptome337Y
F011440Metagenome / Metatranscriptome291Y
F033903Metagenome / Metatranscriptome176Y

Sequences

Protein IDFamilyRBSSequence
Ga0126371_1000002934F011440AGGAGMELLIGPLLERNGGYGYDTFKLAEGLRSSFRYLRLDAARYDQRALIAEARRDPPRKVRVCETQSEFQRLVDELRTGAGAASEPR
Ga0126371_100000294F000622N/AMDGKLVRSIEALRRKLKAVAAIVKDPGATASERANADILKTRLEKRLKDAGAPRGDWTDNAFRLGRWARKLRGSASPASPEGDWTDGAFRLGRALRRGYKRWSSE
Ga0126371_1000002940F033903AGGALLYGLGASADFAWHLVDDLHAGDQAIEFSEVAVAFSGALFWPIDVIAVTLLATL
Ga0126371_1000002963F000997GGGGGMRYPVWLCALFLMSACGSVSSGKSATLILNNPTWDRVNVQAVITKRTDCDNREGYISTQEFVMTKNRTQRIEAPNAENVCWRHDRNPNNPIAGVWSGWSRATMFPGQTFETDL
Ga0126371_1000002999F008194GAGMISLLLNWMELASLLAILFRLSHTFSLIANTQRELRRAIHHLGDRRAR
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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