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 Ga0308412_1008091

Scaffold Ga0308412_1008091


Overview

Basic Information
Taxon OID3300031513 Open in IMG/M
Scaffold IDGa0308412_1008091 Open in IMG/M
Source Dataset NameHot spring phototrophic mat microbial communities from Octopus Spring, Yellowstone National Park, Wyoming, United States - 20070728_OST1-BottomLayer
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5165
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (91.67%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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?
F002229Metagenome / Metatranscriptome580Y
F002372Metagenome / Metatranscriptome566Y
F004024Metagenome / Metatranscriptome456N
F008135Metagenome / Metatranscriptome338Y
F015735Metagenome / Metatranscriptome252Y

Sequences

Protein IDFamilyRBSSequence
Ga0308412_10080912F004024GAGGMHSERDYLRQPSLNDDDMMFLDARATLAAALARAVVGYSDGRVRALAWLAVATPRLYDRVAPIVESSAIRQSPGASRTLRDALRALSLEEYVRRRDERRSDR
Ga0308412_10080914F002229GGAGGMVTLLTLDGVEDVDYVPSDLEIRASLDDSGLYGMVLGGVTWMRLTSGVGWWTVIGGRRVTATLAAVGWCWVADGCGARGYWSPALACVPAEVRVMCGCVEGEDEDGDDGD
Ga0308412_10080915F008135AGGAGGMRAVNDPRTERLLVSAGASIARALDARQRHAAVLAIEVCWYIVAALPPDEDMTCRDVVRLLRWFRNGFQEDGREDGDGD
Ga0308412_10080917F002372AGGGGGMPTRREDALWQIVHRKSSHLRALLDSLDLVDVGVTYELDFYPYAIVELLRVREDAPPLVLRSVYVQANRQWEYHSEFALRVVEAALRLVHEYRADPSMGGAEGV
Ga0308412_10080918F015735GAGGMVVYHYWSVEWHPRDDPPHGLPRVVCIARRAVVDPFSGPGPFPPDIDRALCYWNRIASGGARDHGAGYEVVWRLSVVADDADVDAPPHGAWSGDPLYRARRRLLRWIMRRQCPLFADHFAVEHFRASPEYFGLLEG
 ⦗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.