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 Ga0255147_1001697

Scaffold Ga0255147_1001697


Overview

Basic Information
Taxon OID3300024289 Open in IMG/M
Scaffold IDGa0255147_1001697 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Altamaha River, Georgia, United States - Atl_Miss_RepA_8h
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5396
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (83.33%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States

Source Dataset Sampling Location
Location NameUSA: Georgia
CoordinatesLat. (o)31.4271Long. (o)-81.6053Alt. (m)Depth (m)5
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F013526Metagenome / Metatranscriptome270Y
F015730Metagenome / Metatranscriptome252Y
F016958Metagenome / Metatranscriptome243Y
F026861Metagenome / Metatranscriptome196Y
F029721Metagenome / Metatranscriptome187Y

Sequences

Protein IDFamilyRBSSequence
Ga0255147_100169714F016958AGAAGMKLTITSMAGNTFEMNLPTKENVYYFIDMYKKSLKKNQRVKITCDVLSIDGYIQGTAPIR
Ga0255147_10016972F029721AGGAMRTYSIVDLLVGQYYRPTSLARRYQGGEITYAEKRDDVWVGENYEAYAIRFNGNRWATIAVKVSE
Ga0255147_10016975F026861AGGMKLDEFKALIEQQRKAQQLTNLEKIAKIVATTNTKGKN
Ga0255147_10016977F015730AGGAGMLTQKTLDKIVYEYQHGGVQNYHPEISMSERKALLKYLFTLPNKCSNEKCEATH
Ga0255147_10016978F013526AGGAGLSKKNILISFVTDAETDLDAIFALNKVMYKLPESDVVKFDAFEVLDVVE
 ⦗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.