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 Ga0181430_1000274

Scaffold Ga0181430_1000274


Overview

Basic Information
Taxon OID3300017772 Open in IMG/M
Scaffold IDGa0181430_1000274 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 53 SPOT_SRF_2014-04-10
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)22758
Total Scaffold Genes45 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)36 (80.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
Not Available(Source: )

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?
F006939Metagenome / Metatranscriptome361N
F030435Metagenome / Metatranscriptome185Y
F036783Metagenome / Metatranscriptome169N
F059965Metagenome / Metatranscriptome133N
F086976Metagenome / Metatranscriptome110Y

Sequences

Protein IDFamilyRBSSequence
Ga0181430_100027414F030435N/AMNNQEILDMCRRLASKYYNHQDYDDIVSEGVVLCLKMRAEGINDPPKLYYSARTAMFQYVNVGLSKLSYPKGMAGRDAAVNDTTVYVEPDEAQIPADDLFGSYELKDSIETLKKELNDKEWKVFLVLYNNNNNITEASKELGMSRMHLNTMRNEIRNKLVTICDLTL
Ga0181430_100027417F059965N/AMEMELMDLGILKSDTEELESIAEQTGFYALRAETIAWHKTLIVDGEVMF
Ga0181430_100027420F006939AGGAGMTLPTNMVTNVLSENQNKFITVKFLTKDNEERTYTGRMNVIKGLKGNEKGRIAAEALRKAGYITLKTNKGYKCFNVDRVLGFVAGGRRIFGLGNEV
Ga0181430_100027426F086976GGAMSGDKIPPIDPKTGQFVRPSDGNKVPSDGNKVYKTETELTKGLLNDEIPHELYVELIKVYHEAYEEAPEYGFVGVGCISFAESMLQYHQDGVERRVRIPTLYDEYSFKQENNDE
Ga0181430_100027433F036783GGAMLEIVRTKYGRHVDTRVYIDLGYGEMEIDVEEIEMVNGELSAMAYCHQREIEMYADHKDCERALAKFEKENENE
 ⦗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.