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 Ga0308404_1000435

Scaffold Ga0308404_1000435


Overview

Basic Information
Taxon OID3300031878 Open in IMG/M
Scaffold IDGa0308404_1000435 Open in IMG/M
Source Dataset NameHot spring phototrophic mat microbial communities from Octopus Spring, Yellowstone National Park, Wyoming, United States - 20060914_OS-M4
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)12994
Total Scaffold Genes22 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (77.27%)
Novel Protein Genes10 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (60.00%)
Associated Families10

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Thermal Springs → Hot (42-90C) → Unclassified → Hot Spring Phototrophic Mat → Phototrophic Mat Microbial And Viral Communities From Various Hot Springs In Yellowstone National Park, Wyoming, United States

Source Dataset Sampling Location
Location NameUSA: Wyoming
CoordinatesLat. (o)44.5341Long. (o)-110.798Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000642Metagenome / Metatranscriptome965Y
F000855Metagenome / Metatranscriptome859Y
F001381Metagenome / Metatranscriptome709Y
F002229Metagenome / Metatranscriptome580Y
F002372Metagenome / Metatranscriptome566Y
F002978Metagenome / Metatranscriptome516Y
F004024Metagenome / Metatranscriptome456N
F007172Metagenome / Metatranscriptome356Y
F012676Metagenome / Metatranscriptome278Y
F059995Metagenome / Metatranscriptome133Y

Sequences

Protein IDFamilyRBSSequence
Ga0308404_10004351F059995N/ADAALVYEYAAALHGVHHLTVSPRLRRLYDFVDPASGWDEIADEDVLALLNSGEWLSILNAGEDRNLLDDLSRSW
Ga0308404_100043511F002229GAGGMVTLLTFDGVEDVDYTPSDAEVRASLDDAGLYGMVLNGVTWMRLVSGAGWWTVVCDRRVTATLAAVGWCWVADGLGARGYWSPALACVPTEVRALCGDGCADDEDEEGGDGDG
Ga0308404_100043513F002372AGGGGGMPTRREDALWQIVHRKSSHLCALLDSLDLVDIGVTYELDFYPYAIVELLRVREDAPPLVLRSVYVQANRQWEYHSEYALRIVEAALQLVEEYRADPSAGGSDSWV
Ga0308404_100043517F012676N/AMALELPALVTDRVKENDMNSIKLAAGWDGSPKSLTSPEHNWIRFLEAQGIAHATYLDEPAGWRLVVHDERRFTRALHALRKYGVYGICEWTYDIH
Ga0308404_100043518F007172AGGAGGMTTPTALTTLQRRAFAAALRAAKKDEYCRAVGGFVIVCLSDGTIDWFPLGQPPHRGGEPDRNAVILGRWRWNYRRWSRTA
Ga0308404_10004355F000855GAGGMDWLEDFFSKVVSWLDERTANIYNGIVAFINSLVEIWNGWMDALLHPAQAMPSIPALRWIVDWLGDIADYTRLMYMLVDYVAYASIVQQALAAQLTIVTVGLAFRAWLVIRRVVLVS
Ga0308404_10004356F001381GAGMQYVVATLYVLLWLALAAAAALWLPRWALPAALVQLAVAYVMLRAVWLTVARDDDGA
Ga0308404_10004357F000642N/AMQTISIALAVCACAAAIWYMRRRDAGAGRVRGWLLVYDELGGWRVLPATYGDSGIVADGVTYPASLPALRAGRELVWIARCDAAALIEHQALERARESAALASLWRGGGQWIDFLRVAGVVLPAAFAYFTWAQVASLQALVAQILALVGDK
Ga0308404_10004358F002978N/AMVVPWADRRLWFIQARRGRRVVWGVVYDADDSDSVSLARRAIATLRAAGADCSSLPSPLPGAPPGSGA
Ga0308404_10004359F004024AGGAMPSERDYLRQPSSLSDDDMMFLDARATLAAALSRAVVGYSDSRVRALAWLSIATPRLYDRIAPLIESSAIRQSPGASRTLRDALRALSLEEFVRRRDERRER
 ⦗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.