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 Ga0222712_10054509

Scaffold Ga0222712_10054509


Overview

Basic Information
Taxon OID3300021963 Open in IMG/M
Scaffold IDGa0222712_10054509 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_657D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2965
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (88.89%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.1516Long. (o)-121.6883Alt. (m)Depth (m)10
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000263Metagenome / Metatranscriptome1424Y
F001019Metagenome / Metatranscriptome804Y
F001125Metagenome / Metatranscriptome769Y
F001781Metagenome / Metatranscriptome635Y
F007468Metagenome / Metatranscriptome350Y

Sequences

Protein IDFamilyRBSSequence
Ga0222712_100545091F001781GGAGMKPTDKDKLNECLKILDSTDLGLSLVWLWTWSTINNIFEDETYKQNCTIDEMWDHLCEAVEAGMGFSLEYGAEQHNDDVLEWMLNRDYIVD
Ga0222712_100545092F001019AGAAGGMSYEPSLEILEMEYSCSPGGVDTFEVYDKTEIPLSVPIFETESLTEAVMFCYNLGKDFTVKTLAEWNERELAYEAN
Ga0222712_100545093F000263AGGMDMDMEDIGLPPHLQRMVNAGVSGLDIMHGELKNLMLIAEKDLASALEQEELSEEAMDSMVRTECEGRLDMLVDLYRLTYQLSFAIQERIDFSEKEGQK
Ga0222712_100545094F007468GGAGGLTKSSHFLEYIKLHLISLNQDLEGDYNVESKINIQGQIMATEHLLSVATDIMNSSNERYE
Ga0222712_100545098F001125AGGCGGMGDRANFGFRQSNENIIFLYGHWAGHNMLAQLANAVQAAEPRWQDESYATRISISRLIGEDWTSETGWGLSVNQILDNEHKIPVIDWANQTFTLYEEDLSTVVFSLSLAAFVDKYSRLVM
 ⦗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.