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 Ga0181407_1005485

Scaffold Ga0181407_1005485


Overview

Basic Information
Taxon OID3300017753 Open in IMG/M
Scaffold IDGa0181407_1005485 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 30 SPOT_SRF_2012-01-26
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3763
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (69.23%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
unclassified Hyphomonas → Hyphomonas sp.(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Strait → Unclassified → Seawater → Marine Viral Communities From The Oligotrophic San Pedro Time Series (Spot) Site, San Pedro Channel, Ca, Usa

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)33.55Long. (o)-118.4Alt. (m)Depth (m)5
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004990Metagenome416Y
F011253Metagenome293Y
F035491Metagenome172N

Sequences

Protein IDFamilyRBSSequence
Ga0181407_10054851F035491N/ATKPTWELRAIIKALTLPVSSFLNTDEDNERLEQAQIVLYERRLKNSQPIKMEVK
Ga0181407_100548511F011253N/ALENKVLAEGVPKLKDRSIDIQNIIKKMVKSKSFPYSNAVNKIKKDRKGYYQQKDIKNKQKSLSSDRFQQYLKDIQENDTD
Ga0181407_100548513F004990GGAMYGDPKKKCCSCENGADLKEGNRYFCCDHYAINILGKTMEQIEKELKGYELDI

 ⦗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.