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 Ga0181403_1000079

Scaffold Ga0181403_1000079


Overview

Basic Information
Taxon OID3300017710 Open in IMG/M
Scaffold IDGa0181403_1000079 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 26 SPOT_SRF_2011-09-28
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)22541
Total Scaffold Genes50 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (20.00%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (14.29%)
Associated Families7

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)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004523Metagenome434Y
F011658Metagenome / Metatranscriptome288Y
F014834Metagenome / Metatranscriptome259Y
F021776Metagenome / Metatranscriptome217Y
F030052Metagenome186Y
F048927Metagenome147Y
F059877Metagenome133N

Sequences

Protein IDFamilyRBSSequence
Ga0181403_10000791F048927N/AMSNTIKKSPSTNIIKLNNQTYIPFQLHQLPKYYNEIPLSEQFNLKGYTYINYNSLKSHNFDTHTLNKDLDYTQRR
Ga0181403_100007913F014834N/AMKDTNEIEKQLARKADAYIEEKAEQMYAIHKEIADFTGTSTNFIDYITHWNSYDSAAPENKSNHTAYCDAHQTKKKYRLELELNYKKRLVAKYTKELIAKLDIFE
Ga0181403_100007914F004523GGAMSTEIKSAREAMTIFKILGVKDVTTDRQRKNGTTVYELPISQVWQTLNPKPIRFATYESGYVRNVTEDLASPYQINKTKTHPSSREHYYGYKERILIKSWEDRLIYLAKFVIKNYYQKTTYVMSDYVMECLREAYVRDYNNQPSNRLPFGDIVHPDSTPADDIQVIVNGHRYNLS
Ga0181403_100007917F021776N/AMTKEELEVKISTLQTLVTQKNEELSEYAAQIERLSDELKDLNKPKLTGLQLDELYQAIEQGIESFDFDDVDNFDVDFHIDYDNRIAIESMSFQNADELLRVVYNEAREIFAEIKEDDNQLNQD
Ga0181403_100007918F011658N/AMKTLWQRLKPEIKQAIRNQEEKYPSMIKGVKIALKENYFWSHLTIGEARDIIYFTDYTYASMSSYDWSYGEKFIIEDE
Ga0181403_10000795F030052N/AMDNNTDMKNKYIKKLIELEDLLKVHDWYYAMSDDNNYYKRGRKQFEEIWKLMDELNKNNYSTMADNLYDKYKK
Ga0181403_10000797F059877N/AMKNNKFITAAVVATLALTSCEKTDYDVQFDRDTHVKIMSDNSVSTYAVSTCTGKDTSFVVDFGVAMCINVANLPGIDDVRYDEYEFYAMLDGRKVKGFQNLKDQISDRAQGLVDGNINVQLSGHTDLAVYLLHENMYKAQFFVENGDGQIFELQLKEVY
 ⦗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.