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_10005934

Scaffold Ga0222712_10005934


Overview

Basic Information
Taxon OID3300021963 Open in IMG/M
Scaffold IDGa0222712_10005934 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)12198
Total Scaffold Genes19 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (84.21%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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?
F012098Metagenome / Metatranscriptome283Y
F016389Metagenome / Metatranscriptome247Y
F019997Metagenome / Metatranscriptome226Y
F030064Metagenome186Y

Sequences

Protein IDFamilyRBSSequence
Ga0222712_1000593410F016389N/AMPVIRKFAVQGHAIPSVVHAPRGPFPPEVLAEPEMSIEARDADSLHVGLDDIRFFKCRHCEAILIQKDLDDHICEE
Ga0222712_1000593414F030064AGGAGVTNTFMTIGIVAGALISLGVLLSPMYKKVKRWAQWMERFMRDWEGEEESPGRDRVSGVMERLNNMDGELSQNGGFTTVKDRVDRLYENQVLIMDAFEDLSERLISIETCLMNNPKELEK
Ga0222712_1000593415F019997AGGAGMDINTLKAAGATWLRASVAAVAALYMSGITDPKTLANAFVAGLLGPAAKFVNPKDPSYGFGSKK
Ga0222712_100059347F012098GAGGMPKVHNIGPKHFVQLIDLPVIWGKKFIVRGWTQEIEEPFRTSEPLLVRLPKYKALAFGKWTGFKTEEDALKSALNTREVTYDDFSEEAGWTAPDSDREESLKDINARLDSVDGAVHVHDWQTYYRMAEESQQRPS
 ⦗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.