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 Ga0308409_1005519

Scaffold Ga0308409_1005519


Overview

Basic Information
Taxon OID3300031830 Open in IMG/M
Scaffold IDGa0308409_1005519 Open in IMG/M
Source Dataset NameHot spring phototrophic mat microbial communities from Mushroom Spring, Yellowstone National Park, Wyoming, United States - 20060912_MSe4
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4502
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (90.91%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)7 (100.00%)
Associated Families7

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)44.5387Long. (o)-110.798Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000642Metagenome / Metatranscriptome965Y
F001381Metagenome / Metatranscriptome709Y
F002229Metagenome / Metatranscriptome580Y
F002372Metagenome / Metatranscriptome566Y
F002795Metagenome / Metatranscriptome529Y
F008135Metagenome / Metatranscriptome338Y
F015735Metagenome / Metatranscriptome252Y

Sequences

Protein IDFamilyRBSSequence
Ga0308409_100551910F002372AGGGGGMPTRREDMLWQIVHRKSSHLRALLESLDLVDVGVTYELDFYPYVIVELLRVREHAPPLVLRSVYVQANRQWEYHSEFALRVVDAALQLVEEYRADPSMGGAEGV
Ga0308409_100551911F015735GAGGMVVYHYWSVEWHPHDVDPPGGLLRVVCVARRSVSDPWSGPGPFPADVDRAVRFWNLVASGGARDHGAGYEVVWRLSVVADDADGDALSDGAWSDDPTYRARRRLLRWVVRSQCPMFVDHFAAEHFRSAPGYFGLLEPGA
Ga0308409_10055193F001381GAGMQYVIATLYVLVWLALAAGAALWLPIWALPIALVQLAVAYVMLRSWLTAAAGGDDGA
Ga0308409_10055194F000642GGAMSIALAICAVGAAVWYMRRREASGRVRGWLLLHDDLGGWRVLPAVYGDSGIVADGVTYPAALPALRAGRELVWVARCESAALIEHQALERARESAALASLWRGGGQWLDLLRVMGVVLPAVFAYFTWAQVSALQGLVAQILALVGGE
Ga0308409_10055197F002229GGAGGMVTLLTLDGVEDVDYAPSDAEIRASLDDRALYGMVLHGVTWMRLVSGVGWWTVIGGRRITATLAAIGWCWAADGPGERGYWSATLSAVVGDVCAMYGGCIEDEED
Ga0308409_10055198F008135AGGAGGMRAMIDPRTERVLTEAGASIARVLDARQRHAVALALEVCSYIVAALPPDDDLTFGDMVRLLRWFGEGFNKDSEGDDGD
Ga0308409_10055199F002795GGAGGMATNGLMLRGMVASYREFVSRKDGKTYRVATVFGDLMAGETVLCQVDGYDVFVDSSYARGEMVELPARMQFLRDGSGRPVIKLYVDEGVR
 ⦗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.