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 Ga0334996_0005056

Scaffold Ga0334996_0005056


Overview

Basic Information
Taxon OID3300033994 Open in IMG/M
Scaffold IDGa0334996_0005056 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME25Jul2006D11-rr0046
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8966
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (85.71%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Lake Mendota, Crystal Bog Lake, And Trout Bog Lake In Wisconsin, United States

Source Dataset Sampling Location
Location NameUSA: Wisconsin
CoordinatesLat. (o)43.0995Long. (o)-89.4045Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002302Metagenome573Y
F020322Metagenome224N
F043821Metagenome155N

Sequences

Protein IDFamilyRBSSequence
Ga0334996_0005056_1161_1523F002302AGGMAYTDLFNKAIADVTATLQAVTGLRVVNDATKIVPNCVFLDAPSFETIAGKGNIVRMTFQVKVIGTGPAGLPVLQKLLSIAASVLASPIIVMSGQPGAVEMGGATYPCYNLQMALQAQTA
Ga0334996_0005056_7853_8119F043821GAGMEEKLMAIMTEDDYYEIKIYPKGNRVVLRFVGECWDKYNWEMTYNSYVAPLVRRYSNDWMTWGDRITLTHGYYVWTWQPAVLDIKGDG
Ga0334996_0005056_8104_8388F020322AGGAGGLSDDQVWNAFITSLPKQDQARHDLENFQARLLKNALQEIEDLKLEILQHEAEIVQLQEILQGYSSLLHDTKEDRDRFREDWQAMIRDLSRWKKN
 ⦗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.