NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0208546_1000390

Scaffold Ga0208546_1000390


Overview

Basic Information
Taxon OID3300025585 Open in IMG/M
Scaffold IDGa0208546_1000390 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_0.19_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)16543
Total Scaffold Genes29 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (55.17%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

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
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F028146Metagenome192N
F048934Metagenome147N
F051072Metagenome144Y
F081254Metagenome114N
F085379Metagenome111N

Sequences

Protein IDFamilyRBSSequence
Ga0208546_100039010F051072N/AMNNDFNRSTPVKNTTGGGHSAARYTGTHGHKERSHYWVFIPGEGWVTWLEIHKQFSAAFNDWQMRHVLGLRKAKTKTQ
Ga0208546_100039011F081254N/AMTDQHAEQIIVELRAIRSLLANKPAAPAAASAPAPAGAPKDIPQPSELVSDPGSVEVHFGKNKGTALRSLGAKSVEWYAQEPEPRIGNNGKPFPPRPEDVRLRNAARQLVHGQRGTLAAGSKVTLVTETLTEEVPF
Ga0208546_100039013F028146N/AMETTHEIKKAAVIAAASEQVRALLETHYDAMRKAAEESFVDDDTQSEPKAKASFTIEWDALAMAPTITVKVGWSVRFKDESEAVVDPLQAKLPIGGVE
Ga0208546_100039017F085379GGAGGMSARPNPKSELIDEMVARFAPFKEIQAAVRMQQQAVRQRIYNKGYRREYITHEERAHLLRRRGVKP
Ga0208546_100039029F048934GGAGGVVTYTLNRQPVHRLRYDGASEAAKVSCEMFERLLELDTLKHDSAANLVRRLATLADLSPSAFRLVLRAGSGDTGSILASFEDQARDRGKTRQALHWEWQEDVRRIRMVFPEVAAVLVELRETIKHREDAMSSADGLREAMRHTEGDE

 ⦗Top⦘



© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.