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 Ga0308410_1005179

Scaffold Ga0308410_1005179


Overview

Basic Information
Taxon OID3300031958 Open in IMG/M
Scaffold IDGa0308410_1005179 Open in IMG/M
Source Dataset NameHot spring phototrophic mat microbial communities from Octopus Spring, Yellowstone National Park, Wyoming, United States - 20070728_OST2-MatCore
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6933
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (88.89%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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?
F005631Metagenome / Metatranscriptome394N
F010840Metagenome / Metatranscriptome298Y
F016404Metagenome / Metatranscriptome247N
F105262Metagenome / Metatranscriptome100N

Sequences

Protein IDFamilyRBSSequence
Ga0308410_10051791F010840AGGAGGVNLPFSQPLDKITYGALAAATVVILAWALREFAGIDLPAEVQSALAVIFGYVVSYHIPLNETEAEAIARKYYRNK
Ga0308410_10051792F016404N/AMTIEELLTDEARAAVLRALLMIVLNESDPASARVAAARLFLSQFEEHPNAERDVLVIVDEAAFVKTV
Ga0308410_10051795F005631GGAGMRVSVFVDLDNALRKLLPRAARIEAALDAGAAAAHSVMQVYPPPPAGSRYRRTGNLRQKLRIKKLSKTSRIVENTASYARYVYGMPQARVHRGRWASLRDAAEAAKKEAIAVLKGR
Ga0308410_10051798F105262AGGAGGMLVQETIQPLLRYFNAAASGSDTAVISIANAQAVRIVAHTGTVTGSASLQVHVNDTNNTNNSAQLTDKAIATLASNSTYEIFVTGAEAYAAKTHASHMFVRIAGTGTAQIAIEISAFPGRDIPATLPSGWTRVL
 ⦗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.