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 Ga0208149_1000039

Scaffold Ga0208149_1000039


Overview

Basic Information
Taxon OID3300025610 Open in IMG/M
Scaffold IDGa0208149_1000039 Open in IMG/M
Source Dataset NameAqueous microbial communities from the Delaware River and Bay under freshwater to marine salinity gradient to study organic matter cycling in a time-series - DEBay_Sum_29_D_<0.8_DNA (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)48098
Total Scaffold Genes70 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)38 (54.29%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Coastal → Unclassified → Aqueous → Aqueous Microbial Communities From The Delaware River/Bay And Chesapeake Bay Under Freshwater To Marine Salinity Gradient To Study Organic Matter Cycling In A Time-Series

Source Dataset Sampling Location
Location NameUSA: Delaware Bay
CoordinatesLat. (o)39.283Long. (o)-75.3633Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000345Metagenome / Metatranscriptome1253Y
F003331Metagenome / Metatranscriptome493Y
F004546Metagenome / Metatranscriptome433Y
F095381Metagenome105N

Sequences

Protein IDFamilyRBSSequence
Ga0208149_100003923F000345N/AMTESNELGKALQEWWDSDAYKQLQKQNEEAKQRAVGKYFMLSESDKLDMVQAICYIMCKAESEGTSHRGVMDALGIYPAGFWIDNLMDAHNALWSYYHDKKREKDLQDDLESLDNFIK
Ga0208149_10000393F003331GAGVLIVKHLGTMTEKDKIFRDVWQCAYQRRYNAMVKEDWELYAREHQTLLMCLKIAKWTTFDTDKKRYLKDV
Ga0208149_100003945F095381AGGGGGLSSTGIPLPSSDCPYKILPDGTKNARSVPVQKVAQRWLWCSVLVGHHSVNGAPLTPIHHTPKMNNTTIQVVINGNQVQGQIDEIAKILGMVSNTMQQPVSSTLDEELLPFNKFAIKELSPHLGEELATQVVNKLETCAKSFYPDFRNFIGMYHKVGSIEQRQLLKTLSAIYRFKFGRYMNESAKYSLKSEIKYATICPHCGAIANAFVMRLTKEGLW
Ga0208149_10000399F004546GAGMEYTEEFPFDQFPWKLVFKEGKETRKCYFQTENHRKKHIERYNLKKKDIKLSYKYDE
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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