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 Ga0066903_100034288

Scaffold Ga0066903_100034288


Overview

Basic Information
Taxon OID3300005764 Open in IMG/M
Scaffold IDGa0066903_100034288 Open in IMG/M
Source Dataset NameTropical forest soil microbial communities from Panama analyzed to predict greenhouse gas emissions - Panama Soil - Plot 1 (version 2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5829
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (80.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium(Source: UniRef50)

Ecosystem & Geography

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

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

FamilyCategoryNumber of Sequences3D Structure?
F004828Metagenome / Metatranscriptome422Y
F005101Metagenome / Metatranscriptome412Y
F007168Metagenome / Metatranscriptome356Y
F023771Metagenome / Metatranscriptome208Y
F029059Metagenome / Metatranscriptome189Y

Sequences

Protein IDFamilyRBSSequence
Ga0066903_10003428811F005101GAGMKDELTTILEAMRAAQGELADYLVSADRNAELTIAKLVGILERREVVKAMRLLRASEGVGGAPQPMLAEAS*
Ga0066903_10003428812F007168AGGMREKIGYCRQQAAECAARAQEAADKDTRELFLRFRDSWLSAAKRYESSAAPDESPQRRPASFAPELSARDWREHPNDARTDTTAERLGAA*
Ga0066903_1000342884F004828AGAAGGMRSKSDHAWRMAAQCAKLAQDADEKDEREFYVRMRDSWIMVANRYEFLDGVDEHSAPIERPRSRAGQYIPYPVSRSLERRRGPAARR*
Ga0066903_1000342885F023771AGAAGGMPLYFFHLSFGDRTVADDEGVELPSRSAAREEALAVIRDLADPEVAGNPRRWASWFLQVVDQEGEFLRMPIGHPALEVVTPNGRQAEAEPFEEKPTRPATTVAVRGGRRSAMLVQQMAAVRKHTEQLLQRNQALRQELSSLCLASASIRVSASRVVSLARLASPVGDIEAYRAAPEPARRTHPHLVLLPGEE*
Ga0066903_1000342889F029059AGGMGRSHEYRRYAAECLEMASALHDPKSHATLLHMAQVWLRLAGQRDLTNAEEKCRQGEA*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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