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 Ga0308401_1002272

Scaffold Ga0308401_1002272


Overview

Basic Information
Taxon OID3300031767 Open in IMG/M
Scaffold IDGa0308401_1002272 Open in IMG/M
Source Dataset NameHot spring phototrophic mat microbial communities from Octopus Spring, Yellowstone National Park, Wyoming, United States - 20060913_OS-M1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5189
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (77.78%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Candidatus Thermofonsia → Candidatus Thermofonsia Clade 3 → Candidatus Thermofonsia Clade 3 bacterium(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?
F002970Metagenome / Metatranscriptome517N
F004791Metagenome / Metatranscriptome423Y
F005302Metagenome / Metatranscriptome405Y
F067304Metagenome / Metatranscriptome125Y

Sequences

Protein IDFamilyRBSSequence
Ga0308401_10022725F002970GGAGMSYNTVIDILKMLSDLEVQYNNAVVPVWYLSTQANWLDAAQLPVRIIPVLGGLRLVEGVVYTPTRATRAVWEIDDLLLVRDVGMGRGVADTAAALADYIEDYVARLRFAWLTRGDVQLLNVSGIVDVVRYGERAYEGVAMTTRFAHLIRAPSA
Ga0308401_10022726F005302AGGAGGMSHSGVLAGLYAGNYAVEISTNGTTWTAVSNATVKIDDVELSRPSGEAYVGGSSDYATVTVGKREPIEITLTFLYNEDTNSAANTIFGQFQSASPRLGVRWSPRGLVSQARAYATSNDGGTTTGLGVITNVTLSALDPGDAEPYVAMVTVRTPSLRQYTLGNDPTNLS
Ga0308401_10022727F004791AGGAGGMSTPANIYDVDAIYVDRNALLIRDAATLLNRELTPETIARLVRRAIGNQADLFPIRALRRVYERVLPQIFEPDAAIRARVEGMRPNVATITLGEYHEFLDASERKIAFPPVAATLLIKAYGEDILNEPYAAAALLLKKIFDSIGDEGNE
Ga0308401_10022728F067304N/AMRCDQRLVPPLCAQRREVLRYALKRQTVKRVGRAVVDVSAQHQFGVRCGQRREVEQT
 ⦗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.