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 Ga0075018_10002758

Scaffold Ga0075018_10002758


Overview

Basic Information
Taxon OID3300006172 Open in IMG/M
Scaffold IDGa0075018_10002758 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities in response to fracking from Pennsylvania, USA - Cold Stream Run_MetaG_CSR_2014
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6022
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (80.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Sediment → Unclassified → Unclassified → Watersheds → Freshwater And Sediment Microbial Communities From Various Areas In North America, Analyzing Microbe Dynamics In Response To Fracking

Source Dataset Sampling Location
Location NamePennsylvania, USA
CoordinatesLat. (o)41.1289Long. (o)-78.4195Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001352Metagenome / Metatranscriptome717Y
F009563Metagenome / Metatranscriptome316Y

Sequences

Protein IDFamilyRBSSequence
Ga0075018_100027587F009563AGGVAVAAVLVFAVAGWLWVRTRPSVEATDTAVLDLRERSVARGQNPSDTGQAPLEIPRSAKHLILDLPIGSKEGPYDVGLLTGGGDQILRATGTAQLHDHATSLRVDVDVSSVRPGAYFLGVRQPDLEWARYPVRVL*
Ga0075018_100027588F001352GAGGMSSHELSPEWVLSSPTSGAQTTPVQKELIIVARRLWPSVQAHARRERGSRSLDDNLGLATEVWEGVLRSVSKTLHRIDRKSSPVADMDAYLFGAFHHRFNRILMKERRRQERLNLVPSSGDLELFREARDTKSARDLERGIQVKEALQNMDEWTRKVWAARQYGYSWREIAKHLRLTEPQAKLRFRYAIGKLRARLGYGP*
 ⦗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.