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 Ga0181404_1003395

Scaffold Ga0181404_1003395


Overview

Basic Information
Taxon OID3300017717 Open in IMG/M
Scaffold IDGa0181404_1003395 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 27 SPOT_SRF_2011-10-25
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4456
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (6.25%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Associated Families5

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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?
F002344Metagenome / Metatranscriptome568Y
F005351Metagenome / Metatranscriptome403Y
F050305Metagenome145Y
F053219Metagenome / Metatranscriptome141Y
F086293Metagenome111N

Sequences

Protein IDFamilyRBSSequence
Ga0181404_10033951F005351N/AMYNPNNPSNWSWSKAFDEMEKTVNQAELTQQIINHLHNYDGGEKEFNQLDKENQEEIYNILTQIL
Ga0181404_100339513F053219N/AMNYAIFDMDDTLCTLEHRRDKAMESGKMNFKTLFNPKLVEYDVPEDHVVDLAQTLKMFNTKIIVMTARPYYMEEATREWLKLHNIPFNKLITKEKNKVFQKSSLWKESKLQELLIEIRIEQIVLSIDDNKDNQAMFESYGIPTFDPMLQ
Ga0181404_100339514F002344AGGAMLYDKLKPHIKAKIKENAEEYKSVNWLIDKIKNKEHYSDLTIEEIRSICTFGDVWYYDLTQKELIWGDWLTK
Ga0181404_10033952F050305N/AMNNLNTTIDKVAMSEFGIHYYQLGDNEKQWCHDEMVNNKKWLKKEWEDPLWSVAGKWKAGLPIYKTYINE
Ga0181404_10033953F086293N/AMNKIIIITSVITSGLLGYNAKKDGTRVEYALENVQYIKSWVHEYINNGVLDSSYAEYYLESLNQTEDLLIEELTN
 ⦗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.