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_1001100

Scaffold Ga0308404_1001100


Overview

Basic Information
Taxon OID3300031878 Open in IMG/M
Scaffold IDGa0308404_1001100 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)8102
Total Scaffold Genes19 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (73.68%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (85.71%)
Associated Families7

Taxonomy
Not Available(Source: )

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
F007172Metagenome / Metatranscriptome356Y
F008135Metagenome / Metatranscriptome338Y

Sequences

Protein IDFamilyRBSSequence
Ga0308404_100110014F002372AGGGGGMPTRREDALWSVVHRRASHLRALLDALDDVDMSIAYELHYYPYAIVELLRVREDAPPVVLRSAYVSANRQWERHSEFTLRVVEAALQLVHEYRADPSLGGSDSWA
Ga0308404_100110016F008135AGGAGGMRAMNDPRTERLLVSAGASIARVLDARQRHAVALALEVCWYIVAALPPDDELTFGDMVRLLRWFATGFREADDGDE
Ga0308404_100110017F002229GGAGGMVTLLTLDGVEDVDYVPSDAEVRASLDDAGLYGMVLNGVTWMRLSSGAGWWTVICNRRVTATLAAVGWCWVADGLGARGYWSPALACVPAEVRALCGGCGGCVDDDDGGDEE
Ga0308404_10011002F000642N/AMQEMSVALALCAVGAAIWYMRRREASGRVRGWLLLYDDLGGWRVLPATYGDAGVVADGVTYPASLPTVRVGGALVWIARCDSAALIEHQALERAREAAALASLWKGGGQWIDFLRIAGVVLPVAFAYFTWAQVASLQSLVAQILALVGER
Ga0308404_10011003F001381GAGMQYVIATLYVLVWLALAAAAALWLPRWALPAALVQLAVAYVMLRSWLTAAAGDD
Ga0308404_10011004F000855GAGGVEWLEDFWSKVVSWWDHASANIYNGIVSFVNSLVEIWNGWMDSLLHPAQAMPSSPQLRWIVGWLGDIADYTRLMYMLVDYVAYAAIVQQALTAQIGIVIVGLGFRAWLVIRRVVLVS
Ga0308404_10011009F007172AGGAGGMNTLERRALAATLRAAKRNAYCRAVGGFVIAQMSDGSIDWFPIGQPPHRGGETDRNAVILGKWRWNHRRWSRIA
 ⦗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.