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 Ga0212088_10038212

Scaffold Ga0212088_10038212


Overview

Basic Information
Taxon OID3300022555 Open in IMG/M
Scaffold IDGa0212088_10038212 Open in IMG/M
Source Dataset NameAlinen_combined assembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5526
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (55.56%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Legionellales → unclassified Legionellales → Legionellales bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater Lake Hypolimnion → Bacterial And Archaeal Communities From Various Locations To Study Microbial Dark Matter (Phase Ii)

Source Dataset Sampling Location
Location NameFinland: Lake Alinen Mustajarvi
CoordinatesLat. (o)61.5637Long. (o)22.044Alt. (m)Depth (m)4
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F015302Metagenome255Y
F030333Metagenome185Y
F034448Metagenome174Y
F040990Metagenome160Y
F100256Metagenome102Y

Sequences

Protein IDFamilyRBSSequence
Ga0212088_100382122F030333N/AMIDRNPILTIPVKTYTHYTECEPWCLANIGEWNIAWWKDFPDIAMSVVVEGPHEDCYWFANERDALMFRLRFV
Ga0212088_100382123F034448N/AMHVNNYTLPRPPEQALNQCHAVYINDPAFRMWAMKKYCRENNLSLIWSELVDTSDVSAFFDEACAFYFIDPADATLFTLKFK
Ga0212088_100382124F015302GGTGGMSRDEYYENTAARLDTIIGGDTQHFLRLQRVKNEYDDLARDVPIGQGFLTFYDYVKEYYGVKLQFDGDNVSLAYEVIDEKKYIMFVLKFNR
Ga0212088_100382125F040990N/AMNYYYEIDPGYDGTIFGDKWRYWCMYNCSPADNGKMCFKTHDDFVARSSKVWLENANGVYMIKPTWDARRHRVDRHEFTMVKLRAKTIKWWHDEPG
Ga0212088_100382128F100256GAGMIRVSTADPTFNRAYNNAHCALPVERLEMPRQYGQRWREAYRCRSDGLDEFPHRYYTFDRDEDYTWFMLRWG
 ⦗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.