ubiG:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

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Standard Name

ubiG

Gene Synonym(s)

ECK2224, b2232, JW2226, yfaB, pufX[1], pufX

Product Desc.

UbiG[2][3];

Component of 3-demethylubiquinone 3-methyltransferase[2]; bifunctional 3-demethylubiquinone-8 3-O-methyltransferase and 2-octaprenyl-6-hydroxyphenol methylase[3]

SAM:OMHMB methyltransferase; Reactions: 2-octaprenyl-6-hydroxylphenol to 2-octaprenyl-6-methoxyphenol; 2-octaprenyl-3-methyl-5-hydroxy-6-methoxy-1,4-benzoquinone to ubiquinone 8[4]

Product Synonyms(s)

bifunctional 3-demethylubiquinone-9 3-methyltransferase and 2-octaprenyl-6-hydroxy phenol methylase[1], B2232[2][1], PufX[2][1], YfaB[2][1], UbiG[2][1] , ECK2224, JW2226, pufX, yfaB, b2232

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): ubiG[2], OP00168

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

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Notes

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Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

ubiG

Mnemonic

Ubiquinone

Synonyms

ECK2224, b2232, JW2226, yfaB, pufX[1], pufX

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Notes

Location(s) and DNA Sequence

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<protect> See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

50.38 minutes 

MG1655: 2337589..2338311
<gbrowseImage> name=NC_000913:2337589..2338311 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2286267..2286989
<gbrowseImage> name=NC_012967:2286267..2286989 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2223394..2224116
<gbrowseImage> name=NC_012759:2223394..2224116 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2344237..2344959
<gbrowseImage> name=NC_007779:2344237..2344959 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2428577..2429299
<gbrowseImage> name=NC_010473:2428577..2429299 source=DH10B preset=GeneLocation </gbrowseImage>

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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes
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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

ΔubiG (Keio:JW2226)

deletion

deletion

PMID:16738554

Shigen


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Notes

Genetic Interactions

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Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW2226

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAATGCCGAAAAATCGCCGGT

Primer 2:CCtTTATTCTGCGTGTGCAGCAT

E13A5

Kohara Phage

Genobase

PMID:3038334

2E8

Kohara Phage

Genobase

PMID:3038334

atoS298::Tn10

Linked marker

CAG12177 gyrA+ = CGSC7525[5]

est. P1 cotransduction: 53% [6]
Synonyms:zeh-298::Tn10, zej-298::Tn10 nnnThe original CAG12177 was NalR. This is a NalS derivative constructed by S. McAteer (CGSC).

zfa-723::Tn10

Linked marker

CAG12178 gyrA+ = CGSC7526[5]

est. P1 cotransduction: 83% [6]
Synonyms:zei-723::Tn10, zfa-723::Tn10 nnnThe original CAG12178 was NalR. This is a NalS derivative constructed by S. McAteer (CGSC).

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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc

EcoCyc:EG11143

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11143

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001127

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946607

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1133

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0007374

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Product(s)

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Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

UbiG

Synonyms

bifunctional 3-demethylubiquinone-9 3-methyltransferase and 2-octaprenyl-6-hydroxy phenol methylase[1], B2232[2][1], PufX[2][1], YfaB[2][1], UbiG[2][1] , ECK2224, JW2226, pufX, yfaB, b2232

Product description

UbiG[2][3];

Component of 3-demethylubiquinone 3-methyltransferase[2]; bifunctional 3-demethylubiquinone-8 3-O-methyltransferase and 2-octaprenyl-6-hydroxyphenol methylase[3]

SAM:OMHMB methyltransferase; Reactions: 2-octaprenyl-6-hydroxylphenol to 2-octaprenyl-6-methoxyphenol; 2-octaprenyl-3-methyl-5-hydroxy-6-methoxy-1,4-benzoquinone to ubiquinone 8[4]

EC number (for enzymes)
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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status

GO:0005737

cytoplasm

C

Seeded from Riley et al 2006 [1].

Missing: evidence, reference

GO:0008425

2-polyprenyl-6-methoxy-1,4-benzoquinone methyltransferase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR010233

F

Seeded from EcoCyc (v14.0)

complete

GO:0008689

3-demethylubiquinone-9 3-O-methyltransferase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00472

F

Seeded from EcoCyc (v14.0)

complete

GO:0008689

3-demethylubiquinone-9 3-O-methyltransferase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:2.1.1.64

F

Seeded from EcoCyc (v14.0)

complete

GO:0099119

3-demethylubiquinone-8 3-O-methyltransferase activity

PMID:10419476

IDA: Inferred from Direct Assay

F

Imported from EcoCyc (v 23.5)

complete

GO:0006744

ubiquinone biosynthetic process

PMID:8703953

IGI: Inferred from Genetic Interaction

P

imported from EcoCyc (v 23.5) complementation of coq3 mutant of Saccharomyces cerevisiae

complete

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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence

Protein

Subunits of 3-demethylubiquinone 3-methyltransferase

could be indirect

Protein

rpsA

PMID:16606699

Experiment(s):EBI-1142262

Protein

groL

PMID:16606699

Experiment(s):EBI-1142262

Protein

phrB

PMID:16606699

Experiment(s):EBI-1142262

Protein

dnaK

PMID:16606699

Experiment(s):EBI-1142262

Protein

hemG

PMID:16606699

Experiment(s):EBI-1142262

Protein

rplS

PMID:16606699

Experiment(s):EBI-1142262

Protein

rpsM

PMID:16606699

Experiment(s):EBI-1142262

Protein

glpD

PMID:16606699

Experiment(s):EBI-1142262

Protein

hycF

PMID:16606699

Experiment(s):EBI-1142262

Protein

rplV

PMID:15690043

Experiment(s):EBI-890550
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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes

plasma membrane

From EcoCyc[3]


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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence

at EcoCyc 

MNAEKSPVNH NVDHEEIAKF EAVASRWWDL EGEFKPLHRI NPLRLGYIAE RAGGLFGKKV
LDVGCGGGIL AESMAREGAT VTGLDMGFEP LQVAKLHALE SGIQVDYVQE TVEEHAAKHA
GQYDVVTCME MLEHVPDPQS VVRACAQLVK PGGDVFFSTL NRNGKSWLMA VVGAEYILRM
VPKGTHDVKK FIKPAELLGW VDQTSLKERH ITGLHYNPIT NTFKLGPGVD VNYMLHTQNK
Length

240

Mol. Wt

26.554 kDa

pI

6.6 (calculated)

Extinction coefficient

30,940 - 31,315 (calc based on 6 Y, 4 W, and 3 C residues)

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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type Residues Description Notes References

Domain

61..157

PF08241 Methyltransferase domain

PMID:19920124

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Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=ubiG taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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Resource type Source Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:16130167

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946607

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0007374

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P17993

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11143

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11143

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946607

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001127

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1133

Escherichia coli str. K-12 substr. MG1655

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Notes

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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.


Cellular Levels

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See Help:Cellular levels

Molecule Organism or Strain Value Units Experimental Conditions Assay used Notes Reference(s)

Protein

E. coli K-12 MC4100

3.39E+02

molecules/cell

  • Medium: median data from rich and minimal media
  • Temperature (°C): 37
  • Doubling time (min): Growth Rate(min):
  • Growth phase: other:

emPAI

PMID:18304323

Protein

Ecoli K-12

18.473+/-0.142

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.083795014

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

by RNA_Seq

PMID:20671182

Protein

E. coli K-12 MG1655

2047

molecules/cell/generation

  • Medium: MOPS Complete
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

882

molecules/cell/generation

  • Medium: MOPS Minimal
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

1544

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

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Notes

Transcription and Transcriptional Regulation

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<protect>

See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)

ubiG

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Figure courtesy of RegulonDB

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Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:2337569..2337609 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name Mutation Phenotype Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b2232 (EcoliWiki Page)

NCBI GEO profiles for ubiG

microarray

GenExpDB:b2232 (EcoliWiki Page)

Summary of data for ubiG from multiple microarray studies

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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name Resource Type Description Source Notes

GFP Fusion

Intergenic region (2337352..2337603) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ20; Well:H8[7]

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Notes

Accessions Related to ubiG Expression

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Database Accession Notes

EcoCyc

EcoCyc:EG11143

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1133

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2232

EcoGene

EcoGene:EG11143

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001127

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0007374

Escherichia coli str. K-12 substr. MG1655

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Notes

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Evolution

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Homologs in Other Organisms

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See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism Homologs (Statistics) Comments

Anopheles gambiae

  • ENSANGP00000020560 (score: 1.000; bootstrap: 100%)
  • ENSANGP00000020584 (score: 0.162)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000034784 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT2G30920 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000026292 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00040261 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00000763 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000005167 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000005307 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Danio rerio

  • ZDB-CDNA-040718-399 (score: 1.000; bootstrap: 100%)
  • ZDB-GENE-040718-364 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-050612-50 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0231592 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0032922 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA21644-PA (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000024927 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000254759 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000007795 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000022586 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Mus musculus

  • MGI:101813 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Oryza gramene

  • Q5VMJ1 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000031496 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000013384 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YOL096C (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPCC1625 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000151634 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00013481001 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000035469 (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Shigella flexneri

UBIG

From SHIGELLACYC

E. coli O157

UBIG

From ECOO157CYC

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Notes

Families

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<protect> See Help:Evolution_families for help entering or editing information in this section of EcoliWiki.

Database Accession Notes

Pfam (EcoliWiki Page)

PF08241 Methyltransferase domain


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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 1.13 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 2.11 2.12 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 3.2 3.3 3.4 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.0 5.1 CGSC: The Coli Genetics Stock Center
  6. ↑ 6.0 6.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).
  7. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

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