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 Ga0209500_10084402

Scaffold Ga0209500_10084402


Overview

Basic Information
Taxon OID3300027782 Open in IMG/M
Scaffold IDGa0209500_10084402 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Simoncouche, Canada to study carbon cycling - S_140212_EF_MetaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1605
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Archaea → Euryarchaeota → unclassified Euryarchaeota → Euryarchaeota archaeon(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater Lake → Freshwater Microbial Communities From Northern Lakes Of Canada To Study Carbon Cycling

Source Dataset Sampling Location
Location NameLake Simoncouche, Canada
CoordinatesLat. (o)48.2311Long. (o)-71.2508Alt. (m)Depth (m)1
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000311Metagenome / Metatranscriptome1326Y
F000980Metagenome / Metatranscriptome814Y
F039125Metagenome / Metatranscriptome164Y

Sequences

Protein IDFamilyRBSSequence
Ga0209500_100844022F000980GGAMSVAPGTILFMTNELVSTKYTFACDPDNCDVLIELTSSDGFGFPSGVMEITCPCGRKPVLLSVVNATIAPTTQTKEEKMEETTTPAVTVPDTYNPNLLVTYKVIRGYSDAEYATDKVTSIEWDLHNARQNSKHNAVLQGKIDAVKEIICEAYADSGDQDTLRAIAEALDIELVREVLFTASIEVSGTYSYNILENDYDLDLESEVTDALYADSNNGNIQIDDTEVCNVREC
Ga0209500_100844023F000311GAGMYFELTAPDRLSMEMAYWDAQMIGLDPMALSPLTFNIGTGSIEKVSKIRDKYNLKESYVSDYEPTGYTGR
Ga0209500_100844026F039125GGCGGMGDRANFGFKQSNDNTIFLYGHWAGHGMLERLANAVEAARPRWTDESYATRICVSQ
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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