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 Ga0126307_10030814

Scaffold Ga0126307_10030814


Overview

Basic Information
Taxon OID3300009789 Open in IMG/M
Scaffold IDGa0126307_10030814 Open in IMG/M
Source Dataset NameSerpentine soil microbial communities from UC McLaughlin Reserve, CA, USA - Plot28
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4122
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (77.78%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Serpentine Soil → Serpentine Soil Microbial Communities From Uc Mclaughlin Reserve, Ca, Usa

Source Dataset Sampling Location
Location NameUC McLaughlin Reserve (Lake County, CA)
CoordinatesLat. (o)38.8692Long. (o)-122.4283Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000617Metagenome982Y
F004746Metagenome / Metatranscriptome425Y
F018130Metagenome / Metatranscriptome236Y
F035469Metagenome / Metatranscriptome172Y

Sequences

Protein IDFamilyRBSSequence
Ga0126307_100308144F000617N/AMLSDVVKERDIDLVEIPKSYEVLDATALGERLGLKRDTVLTYLSRRNFERIPRPNRKLAMGPVWFEGSVNEWEAKRDIGDG*
Ga0126307_100308147F018130AGGAGVAPKGNADEQSADRQPRCEIGKIRKAEGECPRPSEVQFDESLLCVRHAELLRLEDHSETMLREVFRMDQWLESADGQADEADVRRAEHPRSELVEQIRLNRTRIALIDNALLKDPDGTT*
Ga0126307_100308148F035469N/AVQVGSESIDGHNGFGLPFDYQLERDADLLILRRFDGSYVAAFGALGVALFEVELAVWEDAD*
Ga0126307_100308149F004746AGGMVRVKEGHWKRQFAGMKGTVQHLWGNLEHAAVDVLLEDGRSELFWLADLSVVVEDMSN*

 ⦗Top⦘



© 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.