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 Ga0126309_10009556

Scaffold Ga0126309_10009556


Overview

Basic Information
Taxon OID3300010039 Open in IMG/M
Scaffold IDGa0126309_10009556 Open in IMG/M
Source Dataset NameSerpentine soil microbial communities from UC McLaughlin Reserve, CA, USA - Plot56
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3935
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (100.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae → unclassified Rubrobacteraceae → Rubrobacteraceae bacterium(Source: UniRef50)

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)38.8707Long. (o)-122.4274Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002864Metagenome / Metatranscriptome525Y
F019060Metagenome / Metatranscriptome232Y
F020164Metagenome225Y
F022153Metagenome215Y
F053801Metagenome140Y

Sequences

Protein IDFamilyRBSSequence
Ga0126309_100095561F019060GGAGGMGEERQEQERTHKMAEELSKLQQIHAHLAAVEQMAASYPEDHSTRLVIESLELYRARTAVEDEIVRLRGSLGFGTEGYGTL*
Ga0126309_1000955610F053801GAGMASKAARSKPNRELPSIKVLLEDLTERVLSGELQTGRAAVANQLVNTRLRAIEAERKIKETEELEARIEALEQASEGRRGERSWLT*
Ga0126309_100095562F002864AGGVKEQGPVRIPKDVLDELEAVRRYTRTEMLDLPTLRYVASERGKPALVVWIHRHEQEYGRGLLDGFQAED*
Ga0126309_100095564F022153GAGVRVADPVGFTYAFGKLEQAIGELVGAGDVKDRLEIATMTLAPIVPDEFPAGHLRDEYADIRQALTWLPPEEGSGQGLLESTLKAMTEEEAGTLAKSIFALYTSAAEAVYGGLHGL*
Ga0126309_100095565F020164GGAGGMAGYLPKEWSGKRVAVRFTRGRGFNARMVGDNAGGLTVEPIEEDAEEERARSAFVPWAAVRYIQLLEAPSEGQRARPKGTAAKKSEDPAP*
 ⦗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.