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 Ga0208643_1011565

Scaffold Ga0208643_1011565


Overview

Basic Information
Taxon OID3300025645 Open in IMG/M
Scaffold IDGa0208643_1011565 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 - Viral MetaG DEL_Nov_12 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3353
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (63.64%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
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)39.12Long. (o)-75.25Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003365Metagenome / Metatranscriptome491Y
F019967Metagenome226N
F029238Metagenome / Metatranscriptome189N
F072752Metagenome121N
F076502Metagenome118N

Sequences

Protein IDFamilyRBSSequence
Ga0208643_10115651F029238AGGMTTKKTEAAEEKSKGGFKERRKECLTNANKIPTVDIKGKKYSTVNERHRHLLQYFPEARFNEEILFHDA
Ga0208643_101156510F076502N/AMDNINKIQEYMFNKKVLIYHGSSGKDYQYYIKEINNDLITIVVDAPIKTSIWSSDHQLWTLDTYNLLSYSKETNKTATWGN
Ga0208643_10115654F003365AGGMKTIGKEWSKKGEEGGCFTADHLSPSQLNKSLDMWFNDYVVLTAAERKALFGNLNMDIGGIVGQAVQDIIVHNLTLEEVMKGKK
Ga0208643_10115655F019967AGGAGGMKVKLEANEVELALNVASKRFIGNLKMGKGFSYGYQGDYRKQIADSFLGALSEVAYAKAFNKFYNGSYTDNLERYSDSDFQGNIEIRGQEKKDHNFLIIRPGEKKGKYILIVHEGNFEFSIMGWFPFTQDMPERLTNFGYSQRPAVYKVDIKELYNINDL
Ga0208643_10115659F072752AGAAGGMNLKYKIFKYLKECLGIEKQDNSHIEDENVEIVDLAEDLVINLNNEQGGENGKK
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© 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.