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 Ga0308399_1001358

Scaffold Ga0308399_1001358


Overview

Basic Information
Taxon OID3300031509 Open in IMG/M
Scaffold IDGa0308399_1001358 Open in IMG/M
Source Dataset NameHot spring phototrophic mat microbial communities from Octopus Spring, Yellowstone National Park, Wyoming, United States - 20060914_OS12-60
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8219
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (77.78%)
Novel Protein Genes8 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)8 (100.00%)
Associated Families8

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)44.5341Long. (o)-110.798Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000642Metagenome / Metatranscriptome965Y
F000855Metagenome / Metatranscriptome859Y
F001381Metagenome / Metatranscriptome709Y
F002229Metagenome / Metatranscriptome580Y
F002795Metagenome / Metatranscriptome529Y
F002978Metagenome / Metatranscriptome516Y
F004024Metagenome / Metatranscriptome456N
F066811Metagenome / Metatranscriptome126N

Sequences

Protein IDFamilyRBSSequence
Ga0308399_100135810F000855GAGGMDWLEDFFSKIVGWLDQISAGVHNAIIGWVNGLIDVWNGWMDSLLHPAQAMPSVPALRWIVDWLGGIADYTRLMYMLTDYVAYAAIVQQALTAQIGVLVVGLGFRAWLVIRRVVLVS
Ga0308399_100135812F066811AGGAGGMEFNNPPQFNAPGMTDILNAATSIFNPFVSVIALAIGVTLGARMLGRIVRLF
Ga0308399_10013582F002795GGAGGMATNDGLVLRGMVAAYREFISRKDGKVYRVVTVYGDLMSGETVLCQVDGYDVFVDAPGYSRGEVVELPARLQFVRDASGRPVVRLYVDEGVR
Ga0308399_10013583F002229GGAGGMVMLLTVDGVEEVDYTPSDAEIRASLDDPGLYGMVLGVVTWMRLSSGAGWWTVLFGKRLVVTLAPVGWCWVMDGLGNRGYWSATLSAVVADVCAMYGGCIED
Ga0308399_10013585F004024AGGAMRSERDYVRQPSLNDDDMMFLDARATLAAALARAVVGYSDSRVRALAWLAVATPRLYDRVAPIVESSAIRQSPGASRTLRDALRALSLEEYVRRRDERRSDR
Ga0308399_10013587F002978GAGMSVRDWRVTLKPWADRRLWFIQARCGGRVVWGVVYDADDPDSVTLARRAIATLRAAGADCSALPSPLPGVGQEP
Ga0308399_10013588F000642GGTGGMQEISIALALCAVAAAVWYMRRREASGRVHGWLVLYDDLGGWRVLPAVYGDAGIVADGVTYPASLPALRAGRELIWIARCDAAALIEHQALERARESAALASLWRGGGQWLDLLRVLGVVLPAAFAYFTWAQVAGLQALVAQILALVGER
Ga0308399_10013589F001381GAGMQYVIATLYVLVWLALAALAALVLPRWALPPTLVQLAVAYVMLRSWLTAAAGGDDGA
 ⦗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.