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 Ga0244775_10024158

Scaffold Ga0244775_10024158


Overview

Basic Information
Taxon OID3300024346 Open in IMG/M
Scaffold IDGa0244775_10024158 Open in IMG/M
Source Dataset NameWhole water sample coassembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5473
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (52.94%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → unclassified Firmicutes sensu stricto → Firmicutes bacterium ADurb.BinA052(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001259Metagenome / Metatranscriptome735Y
F013412Metagenome / Metatranscriptome271N
F029732Metagenome / Metatranscriptome187Y
F039136Metagenome164N
F059002Metagenome134Y

Sequences

Protein IDFamilyRBSSequence
Ga0244775_1002415812F039136N/AMNSIKIRYVTSVFTPAGWRGVVITAEASKTSEKMAVVVEVLEINGDAPKISMSRTGASRQRYNGCGISRREEGAKKRLSACEIL
Ga0244775_1002415815F013412GAGMRHLWARGFGRLHSDAEIITTDDGKQFLIAVIEFEKRTLGNGKAYAQRVTFRSFDHEDMDSVNLLIEGTHIMFDGDCDAVADKSSTGWWYANPRITGRISEIIPSGHES
Ga0244775_100241582F029732AGGMKYQSKTKPTVEVEFVAEAQLRIGETKRLCVIYQRGEVFYVRPKAEFFDKFVLDDSQIQS
Ga0244775_100241583F059002N/AMNILNEIKSGISRLLGVHKTVEIKEVPRTLKSKRITKRGRGRPKGLRIPQQIVDAVRQADKSVTNKQLAAKYRVSYYWIWSVRSKKLRLKR
Ga0244775_100241586F001259AGGAGGMKDSVAFIYINKTNGVIRVETLETAKHIDGRPDWKHVSTVNAHVVLEQILRAKGKERNLIIKHLLT
 ⦗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.