pykA: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

pykA

Gene Synonym(s)

ECK1855, b1854, JW1843[1], JW1843

Product Desc.

pyruvate kinase II[2][3];

Component of pyruvate kinase II[2][3]

Pyruvate kinase II[4]

Product Synonyms(s)

pyruvate kinase II[1], B1854[2][1], PykA[2][1] , ECK1855, JW1843, b1854

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): pykA[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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Binds TrxA (Kumar, 2004).[4]



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

pykA

Mnemonic

Pyruvate kinase

Synonyms

ECK1855, b1854, JW1843[1], JW1843

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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

41.72 minutes, 41.72 minutes 

MG1655: 1935673..1937115
<gbrowseImage> name=NC_000913:1935673..1937115 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1916225..1917667
<gbrowseImage> name=NC_012967:1916225..1917667 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1827732..1829174
<gbrowseImage> name=NC_012759:1827732..1829174 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1939363..1940805
<gbrowseImage> name=NC_007779:1939363..1940805 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2026244..2027686
<gbrowseImage> name=NC_010473:2026244..2027686 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

1935676

Edman degradation

PMID:1859631


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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

ΔpykA (Keio:JW1843)

deletion

deletion

PMID:16738554

Shigen
CGSC9539[5]

pykA::Tn5KAN-2 (FB20473)

Insertion at nt 1240 in Plus orientation

PMID:15262929

E. coli Genome Project:FB20473

contains pKD46

pykA::Tn5KAN-2 (FB20474)

Insertion at nt 1240 in Plus orientation

PMID:15262929

E. coli Genome Project:FB20474

does not contain pKD46

ΔpykA779::kan

PMID:16738554

CGSC:102562


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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

JW1843

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCTCCAGAAGGCTTCGCAGAAC

Primer 2:CCtTCTACCGTTAAAATACGCGT

eda-51::Tn10

Linked marker

CAG18486 = CGSC7392[5]

est. P1 cotransduction: 83% [6]

uvrC279::Tn10

Linked marker

CAG12156 = CGSC7394[5]

est. P1 cotransduction: 7% [6]

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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:EG10803

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10803

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000794

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946527

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0796

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006182

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

PykA

Synonyms

pyruvate kinase II[1], B1854[2][1], PykA[2][1] , ECK1855, JW1843, b1854

Product description

pyruvate kinase II[2][3];

Component of pyruvate kinase II[2][3]

Pyruvate kinase II[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:0000166

nucleotide binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0547

F

Seeded from EcoCyc (v14.0)

complete

GO:0000287

magnesium ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001697

F

Seeded from EcoCyc (v14.0)

complete

GO:0000287

magnesium ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015793

F

Seeded from EcoCyc (v14.0)

complete

GO:0000287

magnesium ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015794

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:IPR015813

F

Seeded from EcoCyc (v14.0)

complete

GO:0004743

pyruvate kinase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001697

F

Seeded from EcoCyc (v14.0)

complete

GO:0004743

pyruvate kinase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015793

F

Seeded from EcoCyc (v14.0)

complete

GO:0004743

pyruvate kinase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015794

F

Seeded from EcoCyc (v14.0)

complete

GO:0004743

pyruvate kinase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:2.7.1.40

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0067

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:0006096

glycolysis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001697

P

Seeded from EcoCyc (v14.0)

complete

GO:0006096

glycolysis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015793

P

Seeded from EcoCyc (v14.0)

complete

GO:0006096

glycolysis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015794

P

Seeded from EcoCyc (v14.0)

complete

GO:0006096

glycolysis

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0324

P

Seeded from EcoCyc (v14.0)

complete

GO:0016301

kinase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0418

F

Seeded from EcoCyc (v14.0)

complete

GO:0016740

transferase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc (v14.0)

complete

GO:0030955

potassium ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001697

F

Seeded from EcoCyc (v14.0)

complete

GO:0030955

potassium ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015793

F

Seeded from EcoCyc (v14.0)

complete

GO:0030955

potassium ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015794

F

Seeded from EcoCyc (v14.0)

complete

GO:0030955

potassium ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0630

F

Seeded from EcoCyc (v14.0)

complete

GO:0046872

metal ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0479

F

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 pyruvate kinase II

could be indirect

Protein

dnaN

PMID:15690043

Experiment(s):EBI-889676

Protein

tig

PMID:15690043

Experiment(s):EBI-889676, EBI-894628

Protein

dnaK

PMID:15690043

Experiment(s):EBI-894628

Protein

lnt

PMID:15690043

Experiment(s):EBI-894628

Protein

malX

PMID:15690043

Experiment(s):EBI-894628

Protein

yggR

PMID:15690043

Experiment(s):EBI-894628

Protein

mutS

PMID:16606699

Experiment(s):EBI-1141036

Protein

fhuA

PMID:16606699

Experiment(s):EBI-1141036

Protein

thrS

PMID:16606699

Experiment(s):EBI-1141036

Protein

fimB

PMID:16606699

Experiment(s):EBI-1141036

Protein

ppk

PMID:16606699

Experiment(s):EBI-1141036

Protein

pflB

PMID:16606699

Experiment(s):EBI-1141036

Protein

otsB

PMID:16606699

Experiment(s):EBI-1141036

Protein

gatD

PMID:19402753

LCMS(ID Probability):99.6

Protein

tig

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):35.521569

Protein

yggR

PMID:19402753

LCMS(ID Probability):99.0

Protein

lnt

PMID:19402753

LCMS(ID Probability):99.0

Protein

malX

PMID:19402753

LCMS(ID Probability):99.0

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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
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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 

MSRRLRRTKI VTTLGPATDR DNNLEKVIAA GANVVRMNFS HGSPEDHKMR ADKVREIAAK
LGRHVAILGD LQGPKIRVST FKEGKVFLNI GDKFLLDANL GKGEGDKEKV GIDYKGLPAD
VVPGDILLLD DGRVQLKVLE VQGMKVFTEV TVGGPLSNNK GINKLGGGLS AEALTEKDKA
DIKTAALIGV DYLAVSFPRC GEDLNYARRL ARDAGCDAKI VAKVERAEAV CSQDAMDDII
LASDVVMVAR GDLGVEIGDP ELVGIQKALI RRARQLNRAV ITATQMMESM ITNPMPTRAE
VMDVANAVLD GTDAVMLSAE TAAGQYPSET VAAMARVCLG AEKIPSINVS KHRLDVQFDN
VEEAIAMSAM YAANHLKGVT AIITMTESGR TALMTSRISS GLPIFAMSRH ERTLNLTALY
RGVTPVHFDS ANDGVAAASE AVNLLRDKGY LMSGDLVIVT QGDVMSTVGS TNTTRILTVE
Length

480

Mol. Wt

51.357 kDa

pI

6.7 (calculated)

Extinction coefficient

10,430 - 10,930 (calc based on 7 Y, 0 W, and 4 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

Initiator Methionine

1

Removed

UniProt:P21599

Domain

5..350

PF00224 Pyruvate kinase, barrel domain

PMID:19920124

Domain

362..478

PF02887 Pyruvate kinase, alpha/beta 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=pykA 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:16129807

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946527

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006182

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P21599

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10803

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10803

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946527

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000794

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0796

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

Ecoli K-12

118.856+/-0.466

Molecules/cell

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

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.43586+/-0.09202

Molecules/cell

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

by FISH

PMID:20671182

mRNA

Ecoli K-12

0.127947295

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

2749

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

1611

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

1798

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)

pykA

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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_000913:1935653..1935693 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

</protect>

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:b1854 (EcoliWiki Page)

NCBI GEO profiles for pykA

microarray

GenExpDB:b1854 (EcoliWiki Page)

Summary of data for pykA 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
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Notes

Accessions Related to pykA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10803

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0796

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1854

EcoGene

EcoGene:EG10803

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000794

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006182

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

Xenopus tropicalis

  • ENSXETP00000013908 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

PYKA

From SHIGELLACYC

E. coli O157

PYKA

From ECOO157CYC

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Do-It-Yourself Web Tools

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Notes

Families

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

Database Accession Notes

Superfamily (EcoliWiki Page)

SUPERFAMILY:50800

Superfamily (EcoliWiki Page)

SUPERFAMILY:51621

Superfamily (EcoliWiki Page)

SUPERFAMILY:52935

Panther (EcoliWiki Page)

PTHR11817:SF0

Pfam (EcoliWiki Page)

PF00224 Pyruvate kinase, barrel domain

Pfam (EcoliWiki Page)

PF02887 Pyruvate kinase, alpha/beta domain

EcoCyc

EcoCyc:EG10803

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10803

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000794

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0796

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006182

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 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 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 4.2 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).

Categories

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