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 Ga0208232_1000309

Scaffold Ga0208232_1000309


Overview

Basic Information
Taxon OID3300020527 Open in IMG/M
Scaffold IDGa0208232_1000309 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 24AUG2012 deep hole epilimnion (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10509
Total Scaffold Genes22 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (13.64%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa

Source Dataset Sampling Location
Location NameLake Mendota, Madison, Wisconsin, USA
CoordinatesLat. (o)43.098333Long. (o)-89.405278Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001775Metagenome / Metatranscriptome636Y
F014605Metagenome / Metatranscriptome261N
F049637Metagenome / Metatranscriptome146N
F084121Metagenome / Metatranscriptome112N
F093739Metagenome / Metatranscriptome106Y

Sequences

Protein IDFamilyRBSSequence
Ga0208232_100030912F001775GAGGMKDLLDDERKRIAIIAFLIGVLLTFVIYPKPEQETVYKYETVTKTDTLMVEVKDTVYVPKKWIKSQIIRDTILVDYKPQISLFKTSIPSEYGSTNVSGEVLGEVLKMTATNDFKIPVVINTITETKTETIIKKSKGIYLGASVNSLLQPGAKVSYLDNKYIFEYQYQPFTRSHQIGISKKLF
Ga0208232_100030917F093739N/AMKYSTEQIKRAVRSCVCCQNNGLKVHLDMEDHTEAGEIFFNHFSGIVEPRLTELLENTRYVIKLQLITRHLQHNYK
Ga0208232_100030919F084121N/AMPRKKATTYHSKFILKRRFITKFNEFTDWQDIGYGEFLSIEDVQDKIKMLIQNYKNKHIEVHFEMNGKLLDFNGNEISHPIKFTPK
Ga0208232_10003094F014605N/AMIVNLAIALQDIEGNKITSENGEFMYLSKMVGNALFSAEEKDDPIRLYELAKKIYYSDGDIELSKSDADLVKEKVKAKGFTVLVLGPLYEALKEK
Ga0208232_10003095F049637N/AMNILKSDELGVPSTFLAIFANVTAMAGLQMVNVVFTSVISILSIVYLVYKIINESKKLKNNGKG
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Institute for Fundamental Biomedical Research
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