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 Ga0308421_1000827

Scaffold Ga0308421_1000827


Overview

Basic Information
Taxon OID3300032057 Open in IMG/M
Scaffold IDGa0308421_1000827 Open in IMG/M
Source Dataset NameHot spring phototrophic mat microbial communities from Mushroom Spring, Yellowstone National Park, Wyoming, United States - 20090730_MS60
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)17729
Total Scaffold Genes30 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)26 (86.67%)
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)44.5387Long. (o)-110.798Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002982Metagenome / Metatranscriptome515Y
F004307Metagenome / Metatranscriptome444Y
F007976Metagenome / Metatranscriptome341Y
F008499Metagenome / Metatranscriptome332Y
F051735Metagenome / Metatranscriptome143N

Sequences

Protein IDFamilyRBSSequence
Ga0308421_100082711F051735AGGAGGMFRDVVILNGPVPKDGVADYERVRIKARPLGRPYTWDNGRAWNDYTTNGGVAIVFEAKDGSIYIQEIEWEVDPYPDATPDPRTYYYYEVYNSLDEARAGWRGWLIEYALGIE
Ga0308421_100082714F007976AGAAGGMPSSELAHFLRTAIDIQATPFPGIHVADGVMAATDGVMLVAKKFDVVFMRGEGAISPKAAKVLEALAEATWIGSVAVVGNRVTATAQTTRYDEQLGAEVAGGYREIELEFYCPRAPVARMLATLTDEGRGWVNLVENPKMKTVKEANAKEYVALVEDPRGGEELFRPKTDNDAQWYSVAQLRRGLRLFGKNSRLSVRRNSSGWLAFGDQWGYTFAVTPFVKHN
Ga0308421_100082715F002982AGGAGVKLQFERHPHSICAVLTEPGECDRIINVDRASDAIGVLALDVAPAAYKPLDALFALPRVVCVEIERRAGNWRVEVVHWDGALGTLAQYETDAASLAEALARCVWALAG
Ga0308421_100082727F008499GGAGGMKTFRSKSEPRWKRKEREAVKALQAIFGRVSDPSLSRLLSSTGRVGHLTRFGVDGFVGNEPGFAVEVKARRKMLTKPTLDALLQTIDRAARFERIPLFVLVFGDDVPARTENGARVDREWVMMPRRVLDELVGKNKGDGDA
Ga0308421_100082728F004307AGGAMFKELISNGNHSERPELNGAYIGRFLGVKERQRPTFETRLSPEPTYEDVFVFEFEVEDDDGNPLRVSKWVRKPARLSHPGKSGKVTNLYRVLAALYGVSVMTDAQLERAEEFVQEAVGREYQLTIETKPSGWCEIVHIAPARRTRQRRTKEDEDVPF
 ⦗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.