poxB: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

poxB

Gene Synonym(s)

ECK0862, b0871, JW0855[1], JW0855

Product Desc.

pyruvate oxidase[2][3];

Component of PYRUVOXID-CPLX[2]

Pyruvate oxidase[4]

Product Synonyms(s)

pyruvate dehydrogenase (pyruvate oxidase), thiamin-dependent, FAD-binding[1], B0871[2][1], PoxB[2][1] , ECK0862, JW0855, b0871

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): ybjT[2], poxB[2]

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

poxB

Mnemonic

Pyruvate oxidase

Synonyms

ECK0862, b0871, JW0855[1], JW0855

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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

19.58 minutes 

MG1655: 910272..908554
<gbrowseImage> name=NC_000913:908554..910272 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 927756..926038
<gbrowseImage> name=NC_012967:926038..927756 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 811522..813240
<gbrowseImage> name=NC_012759:811522..813240 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 911471..909753
<gbrowseImage> name=NC_007779:909753..911471 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 964200..962482
<gbrowseImage> name=NC_010473:962482..964200 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

Coding Start (SO:0000323)

MG1655

908554

Edman degradation

PMID:3902830


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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

ΔpoxB (Keio:JW0855)

deletion

deletion

PMID:16738554

Shigen
CGSC8889[5]

poxBA553V

A553V

In poxB14

seeded from UniProt:P07003

poxBD560P

D560P

In poxB15; normal activity

seeded from UniProt:P07003

poxB

Deletion

poxBE564P

E564P

In poxB16; loss of activity

seeded from UniProt:P07003

poxB

Deletion

poxBR572G

R572G

In poxB10; reduced activity; may interact less with membranes

seeded from UniProt:P07003

poxBA533T

A533T

In poxB11

seeded from UniProt:P07003

poxB

Deletion

ΔpoxB::kan

deletion

Biolog:respiration

unable to respire b-Methyl-D-glucoside

PMID:16095938

ΔpoxB::kan

deletion

Biolog:respiration

unable to respire Acetate

PMID:16095938

ΔpoxB::kan

deletion

Biolog:respiration

unable to respire a-Hydroxybutyrate

PMID:16095938

ΔpoxB::kan

deletion

Biolog:respiration

unable to respire a-Ketobutyrate

PMID:16095938

ΔpoxB::kan

deletion

Biolog:respiration

unable to respire a-Ketoglutarate

PMID:16095938

ΔpoxB::kan

deletion

Biolog:respiration

unable to respire Bromosuccinate

PMID:16095938

poxB11

CGSC:10582

poxB14::kan

PMID:3045082

CGSC:64804

poxB15::lacZ::CmR

PMID:8022274

CGSC:64823

ΔpoxB772::kan

PMID:16738554

CGSC:102414


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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

JW0855

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAAACAAACGGTTGCAGCTTA

Primer 2:CCCCTTAGCCAGTTTGTTTTCGC

14H6

Kohara Phage

Genobase

PMID:3038334

zbh-29::Tn10

Linked marker

CAG18493 = CGSC7353[5]

est. P1 cotransduction: % [6]
Synonyms:zbi-29::Tn10

zca-1230::Tn10

Linked marker

CAG18478 = CGSC7356[5]

est. P1 cotransduction: 21% [6]
Synonyms:zbj-1230::Tn10

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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:EG10754

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10754

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000745

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946132

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0747

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002958

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

PoxB

Synonyms

pyruvate dehydrogenase (pyruvate oxidase), thiamin-dependent, FAD-binding[1], B0871[2][1], PoxB[2][1] , ECK0862, JW0855, b0871

Product description

pyruvate oxidase[2][3];

Component of PYRUVOXID-CPLX[2]

Pyruvate oxidase[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:0000287

magnesium ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000399

F

Seeded from EcoCyc (v14.0)

complete

GO:0000287

magnesium ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012000

F

Seeded from EcoCyc (v14.0)

complete

GO:0000287

magnesium ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0460

F

Seeded from EcoCyc (v14.0)

complete

GO:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011766

F

Seeded from EcoCyc (v14.0)

complete

GO:0005829

cytosol

PMID:16858726

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-1003

C

Seeded from EcoCyc (v14.0)

complete

GO:0008289

lipid binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0446

F

Seeded from EcoCyc (v14.0)

complete

GO:0008985

pyruvate dehydrogenase (cytochrome) activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:1.2.2.2

F

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

F

Seeded from EcoCyc (v14.0)

complete

GO:0016740

transferase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000399

F

Seeded from EcoCyc (v14.0)

complete

GO:0019898

extrinsic to membrane

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-9903

C

Seeded from EcoCyc (v14.0)

complete

GO:0030976

thiamin pyrophosphate binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000399

F

Seeded from EcoCyc (v14.0)

complete

GO:0030976

thiamin pyrophosphate binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011766

F

Seeded from EcoCyc (v14.0)

complete

GO:0030976

thiamin pyrophosphate binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012000

F

Seeded from EcoCyc (v14.0)

complete

GO:0030976

thiamin pyrophosphate binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012001

F

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

P

Seeded from EcoCyc (v14.0)

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 PYRUVOXID-CPLX

could be indirect

Protein

nadE

PMID:16606699

Experiment(s):EBI-1138219

Protein

mrcB

PMID:16606699

Experiment(s):EBI-1138219

Protein

tufB

PMID:19402753

MALDI(Z-score):19.382895

Protein

dnaN

PMID:19402753

MALDI(Z-score):33.298396

Protein

aroA

PMID:19402753

MALDI(Z-score):21.156143

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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 

MKQTVAAYIA KTLESAGVKR IWGVTGDSLN GLSDSLNRMG TIEWMSTRHE EVAAFAAGAE
AQLSGELAVC AGSCGPGNLH LINGLFDCHR NHVPVLAIAA HIPSSEIGSG YFQETHPQEL
FRECSHYCEL VSSPEQIPQV LAIAMRKAVL NRGVSVVVLP GDVALKPAPE GATMHWYHAP
QPVVTPEEEE LRKLAQLLRY SSNIALMCGS GCAGAHKELV EFAGKIKAPI VHALRGKEHV
EYDNPYDVGM TGLIGFSSGF HTMMNADTLV LLGTQFPYRA FYPTDAKIIQ IDINPASIGA
HSKVDMALVG DIKSTLRALL PLVEEKADRK FLDKALEDYR DARKGLDDLA KPSEKAIHPQ
YLAQQISHFA ADDAIFTCDV GTPTVWAARY LKMNGKRRLL GSFNHGSMAN AMPQALGAQA
TEPERQVVAM CGDGGFSMLM GDFLSVVQMK LPVKIVVFNN SVLGFVAMEM KAGGYLTDGT
ELHDTNFARI AEACGITGIR VEKASEVDEA LQRAFSIDGP VLVDVVVAKE ELAIPPQIKL
EQAKGFSLYM LRAIISGRGD EVIELAKTNW LR
Length

572

Mol. Wt

62.011 kDa

pI

6.3 (calculated)

Extinction coefficient

48,360 - 49,610 (calc based on 14 Y, 5 W, and 10 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

191..319

PF00205 Thiamine pyrophosphate enzyme, central domain

PMID:19920124

Domain

379..525

PF02775 Thiamine pyrophosphate enzyme, C-terminal TPP binding domain

PMID:19920124

Domain

3..172

PF02776 Thiamine pyrophosphate enzyme, N-terminal TPP binding domain

PMID:19920124

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<motif_map/>

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

Structures

<beststructure> gene=poxB 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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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

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:16128839

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946132

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002958

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P07003

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10754

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10754

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946132

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000745

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0747

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

1.24E+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

E. coli K-12 MG1655

40

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

877

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

24a

molecules/cell/generation

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

Ribosome Profiling

Low confidence in the sequencing data set.

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)

ybjT

poxB

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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_000913:910252..910292 source=MG1655 flip=1 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:b0871 (EcoliWiki Page)

NCBI GEO profiles for poxB

microarray

GenExpDB:b0871 (EcoliWiki Page)

Summary of data for poxB 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 (910200..910475) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ03; Well:B1[7]

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Notes

Accessions Related to poxB Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10754

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0747

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0871

EcoGene

EcoGene:EG10754

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000745

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002958

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

Shigella flexneri

POXB

From SHIGELLACYC

E. coli O157

POXB

From ECOO157CYC

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Do-It-Yourself Web Tools

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Notes

Families

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Database Accession Notes

Superfamily (EcoliWiki Page)

SUPERFAMILY:52467

Superfamily (EcoliWiki Page)

SUPERFAMILY:52518

Superfamily (EcoliWiki Page)

SUPERFAMILY:52518

Panther (EcoliWiki Page)

PTHR18968:SF12

Pfam (EcoliWiki Page)

PF00205 Thiamine pyrophosphate enzyme, central domain

Pfam (EcoliWiki Page)

PF02775 Thiamine pyrophosphate enzyme, C-terminal TPP binding domain

Pfam (EcoliWiki Page)

PF02776 Thiamine pyrophosphate enzyme, N-terminal TPP binding domain

EcoCyc

EcoCyc:EG10754

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10754

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000745

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0747

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002958

Escherichia coli str. K-12 substr. MG1655

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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. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 1.8 1.9 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 2.4 2.5 2.6 2.7 2.8 2.9 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 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 5.2 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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