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 Ga0308400_1001552

Scaffold Ga0308400_1001552


Overview

Basic Information
Taxon OID3300032045 Open in IMG/M
Scaffold IDGa0308400_1001552 Open in IMG/M
Source Dataset NameHot spring phototrophic mat microbial communities from Octopus Spring, Yellowstone National Park, Wyoming, United States - 20060914_OS12-65
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7334
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (92.31%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

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?
F002982Metagenome / Metatranscriptome515Y
F007976Metagenome / Metatranscriptome341Y
F031016Metagenome / Metatranscriptome183Y
F043176Metagenome / Metatranscriptome156Y
F044842Metagenome / Metatranscriptome153Y
F075805Metagenome / Metatranscriptome118Y

Sequences

Protein IDFamilyRBSSequence
Ga0308400_100155211F007976AGGAMSSTELARFLDVALDVQAPPYPGIHVADGMLVAASHVMLLVKKFENVVFLRGKGAISPKAAKVLVALAEATYIGSIEVNGNRVTVTAQSTWYDEKVGAEVAGGYREVTLPELYCRQIPIKRMVEVLDDKALRWEVLPLSSNPKLKTLKEANAKDYVALVDSPRGGYELFRLKDIDDTHWYSVAQLRCGLRLFGKHSSLIVRRSKDGWLAFGDQFGYTFAITPFVKHN
Ga0308400_100155212F043176AGGAGGMQTYKIWEGERTFLPGDDTSKFTIIEITGEELGWFEDVIDGKTYYVYQTSEGEVVINIVEQSYGIGEPSRAVIYRFSNLEDAAQSEQRYALEELRLI
Ga0308400_10015523F044842AGGAGMEEIELWCGVRGDGFPSAGKVCFVGEFLGVVDVARVEDWVERCVLYRTEDGRVAVHQLRLSLLDDGADVAEVYILPALDAGEGERGERV
Ga0308400_10015527F031016AGGAGGMATIRIWSGSRRVVCGEDYEFVKYEEFEGETLGACWEEENNRGTQTTFYQTNDGRIVAHVVRWSRWENEATYAYVHVFPSLEGVNGAAAMFWWELRKAGIIPPLTVALG
Ga0308400_10015528F075805AGGAGGMRVRVWHGWRAVHNGKDVSRWEWVEFDGEPLGSLVVEVDENRTDERVFYRLSDGRIVVAEHRYGDWEKGGVDYGVVSVYADLDDAARRGWRDDLVRIGAYDAPTLELDEWLSRYDEEE
Ga0308400_10015529F002982GAGGMKITFERTPTAICAVLYEPGECDRIINVARASDTIDALALDIHTAALKPLDALFALPRVVLAEIERREGGWRVEVAYWHKGLGTLAQYEEDAATLSEALARCVWALAR
 ⦗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.