apaH: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

apaH

Gene Synonym(s)

ECK0050, b0049, JW0048, cfcB[1], cfcB

Product Desc.

diadenosine tetraphosphatase[2][3]

Dinucleoside tetraphosphatase, symmetrical; diadenosine tetraphosphatase; bis(5'-nucleosyl)-tetraphosphatase, symmetrical[4]

Product Synonyms(s)

diadenosine tetraphosphatase[1], B0049[2][1], CfcB[2][1], ApaH[2][1] , cfcB, ECK0050, JW0048, b0049

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): apaGH[2], pdxA-rsmA-apaGH[2], pdxA-ksgA-apaG-apaH, rsmA-apaGH[2], ksgA-apaG-apaH, rsmA-apaG-apaH, surA-pdxA-rsmA-apaGH[2], surA-pdxA-ksgA-apaGH

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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Required for invasion of cultured mammalian cells by S. typhimurium. Stress response. Complex operon.[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

apaH

Mnemonic

Adenine-tetraPhosphate-adenine

Synonyms

ECK0050, b0049, JW0048, cfcB[1], cfcB

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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

BW2952

NC_012759: 50380..51222
<gbrowseImage> name=NC_012759:50380..51222 source=BW2952 preset=GeneLocation </gbrowseImage>

MG1655

1.09 minutes 

MG1655: 51222..50380
<gbrowseImage> name=NC_000913:50380..51222 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 55417..54575
<gbrowseImage> name=NC_012967:54575..55417 source=REL606 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 51222..50380
<gbrowseImage> name=NC_007779:50380..51222 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 51222..50380
<gbrowseImage> name=NC_010473:50380..51222 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

50383

Edman degradation

PMID:3031429


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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

apaH(del) (Keio:JW0048)

deletion

deletion

PMID:16738554

Shigen

CGSC8360[5]

apaH761(del)::kan

PMID:16738554

CGSC:100014

apaH761(del)::FRTKanFRT

deletion

Mutagenesis Rate

Decrease in stress induced mutagenesis (SIM).

PMID:23224554

Parent Strain: SMR4562 Experimental Strain: SMR11990

The mutation conferred a significant decrease in SIM with mutant frequency being reduced by 68 to 89 percent. See table S3 for full experimental data.

apaH761(del)::FRTKanFRT

deletion

Sensitivity to

SDS-EDTA sensitivity

PMID:23224554

Parent Strain: SMR4562 Experimental Strain: SMR11990

The mutation conferred a increase in SDS-EDTA sensitivity. See tables S7 and S1 for experimental results.

SMR4562 yiaG-yfp FRTcatFRT apaH761(del)::FRTKanFRT

Sigma S

Decrease in sigmaS activity

PMID:23224554

Parental Strain: SMR10582 Experimental Strain: SMR12830

See Table S8 for full experimental results.

CAG45114 apaH761(del)::FRTKanFRT

Deletion

SigmaE

Decrease in SigmaE activity

PMID:23224554

Parental Strain: CAG45114 Experimental Strain: SMR15328

See table S11 for full experimental results.

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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

JW0048

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCGCGACATACCTTATTGGCGA

Primer 2:CCAGACGCCGCCGCTTCGCCCAA

2F7

Kohara Phage

Genobase

PMID:3038334

4A3

Kohara Phage

Genobase

PMID:3038334

8D2

Kohara Phage

Genobase

PMID:3038334

carB96::Tn10

Linked marker

CAG12093 = CGSC7322[5]

est. P1 cotransduction: 53% [6]
Synonyms:car-96::Tn10

leuO3051::Tn10

Linked marker

CAG12095 = CGSC7324[5]

est. P1 cotransduction: 27% [6]
Synonyms:zab-3051::Tn10 nnnThe start of leuO was reannotated by Riley et al. (2006).

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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:EG10048

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10048

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000044

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:944770

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0046

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000167

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

ApaH

Synonyms

diadenosine tetraphosphatase[1], B0049[2][1], CfcB[2][1], ApaH[2][1] , cfcB, ECK0050, JW0048, b0049

Product description

diadenosine tetraphosphatase[2][3]

Dinucleoside tetraphosphatase, symmetrical; diadenosine tetraphosphatase; bis(5'-nucleosyl)-tetraphosphatase, symmetrical[4]

EC number (for enzymes)
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Notes

ApaH catalyzes the reaction 5',5'''-diadenosine tetraphosphate + H2O <=> 2 ADP + 2 H+

See the reaction at [EcoCyc]

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:0008803

bis(5'-nucleosyl)-tetraphosphatase (symmetrical) activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00199

F

Seeded from EcoCyc (v14.0)

complete

GO:0008803

bis(5'-nucleosyl)-tetraphosphatase (symmetrical) activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004617

F

Seeded from EcoCyc (v14.0)

complete

GO:0008803

bis(5'-nucleosyl)-tetraphosphatase (symmetrical) activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:3.6.1.41

F

Seeded from EcoCyc (v14.0)

complete

GO:0016787

hydrolase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004843

F

Seeded from EcoCyc (v14.0)

complete

GO:0016787

hydrolase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

F

Seeded from EcoCyc (v14.0)

complete

GO:0008796

bis(5'-nucleosyl)-tetraphosphatase activity

PMID:2995325

IMP: Inferred from Mutant Phenotype

F

Fig. 4

complete

GO:0015949

nucleobase, nucleoside and nucleotide interconversion

PMID:2995325

IMP: Inferred from Mutant Phenotype

P

complete

GO:0008803

bis(5'-nucleosyl)-tetraphosphatase (symmetrical) activity

PMID:6317672

IDA: Inferred from Direct Assay

F

Table I. Assay described in Materials & Methods.

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

htpG

PMID:16606699

Experiment(s):EBI-1135450

Protein

intD

PMID:16606699

Experiment(s):EBI-1135450

Protein

rplS

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsN

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplJ

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsH

PMID:19402753

LCMS(ID Probability):99.6

Protein

gapA

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplY

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsP

PMID:19402753

LCMS(ID Probability):99.6

Protein

eno

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpmC

PMID:19402753

LCMS(ID Probability):99.6

Protein

yfiD

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsT

PMID:19402753

LCMS(ID Probability):99.6

Protein

groS

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplA

PMID:19402753

LCMS(ID Probability):99.6

Protein

yccJ

PMID:19402753

LCMS(ID Probability):99.6

Protein

adk

PMID:19402753

LCMS(ID Probability):99.6

Protein

minD

PMID:19402753

LCMS(ID Probability):99.4

Protein

hupB

PMID:19402753

LCMS(ID Probability):99.6

Protein

hupA

PMID:19402753

LCMS(ID Probability):99.6

Protein

hns

PMID:19402753

LCMS(ID Probability):99.6

Protein

tig

PMID:19402753

LCMS(ID Probability):99.6

Protein

slyD

PMID:19402753

LCMS(ID Probability):99.6

Protein

rne

PMID:19402753

LCMS(ID Probability):99.6

Protein

ygiW

PMID:19402753

LCMS(ID Probability):99.4

Protein

efp

PMID:19402753

LCMS(ID Probability):99.6

Protein

hisB

PMID:19402753

LCMS(ID Probability):99.4

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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 

MATYLIGDVH GCYDELIALL HKVEFTPGKD TLWLTGDLVA RGPGSLDVLR YVKSLGDSVR
LVLGNHDLHL LAVFAGISRN KPKDRLTPLL EAPDADELLN WLRRQPLLQI DEEKKLVMAH
AGITPQWDLQ TAKECARDVE AVLSSDSYPF FLDAMYGDMP NNWSPELRGL GRLRFITNAF
TRMRFCFPNG QLDMYSKESP EEAPAPLKPW FAIPGPVAEE YSIAFGHWAS LEGKGTPEGI
YALDTGCCWG GTLTCLRWED KQYFVQPSNR HKDLGEAAAS
Length

280

Mol. Wt

31.297 kDa

pI

5.1 (calculated)

Extinction coefficient

57,410 - 58,160 (calc based on 9 Y, 8 W, and 6 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

1..236

PF00149 Calcineurin-like phosphoesterase

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=apaH 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:16128043

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000167

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P05637

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10048

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10048

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:944770

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000044

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:944770

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0046

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

E. coli K-12 MG1655

453

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

184

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

165

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)

apaGH

pdxA-rsmA-apaGH

rsmA-apaGH

surA-pdxA-rsmA-apaGH

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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_000913:51202..51242 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:b0049 (EcoliWiki Page)

NCBI GEO profiles for apaH

microarray

GenExpDB:b0049 (EcoliWiki Page)

Summary of data for apaH 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 apaH Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10048

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0046

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0049

EcoGene

EcoGene:EG10048

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000044

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000167

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

Caenorhabditis briggsae

  • WBGene00035490 (score: 1.000; bootstrap: 100%)
  • WBGene00039494 (score: 0.120)
  • WBGene00031226 (score: 0.078)
  • WBGene00028489 (score: 0.078)
  • WBGene00023971 (score: 0.076)
  • WBGene00034164 (score: 0.074)
  • WBGene00031227 (score: 0.073)
  • WBGene00039785 (score: 0.070)
  • WBGene00033487 (score: 0.070)
  • WBGene00023746 (score: 0.068)
  • WBGene00041369 (score: 0.068)
  • WBGene00032850 (score: 0.068)
  • WBGene00031314 (score: 0.067)
  • WBGene00024318 (score: 0.067)
  • WBGene00033480 (score: 0.063)
  • WBGene00042414 (score: 0.061)
  • WBGene00030094 (score: 0.059)
  • WBGene00031411 (score: 0.059)
  • WBGene00027200 (score: 0.058)
  • WBGene00030142 (score: 0.054)
  • WBGene00037584 (score: 0.052)
  • WBGene00039449 (score: 0.051)
  • WBGene00039363 (score: 0.051)
  • WBGene00030987 (score: 0.050)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00003969 (score: 1.000; bootstrap: 100%)
  • WBGene00012665 (score: 0.133)
  • WBGene00001747 (score: 0.079)
  • WBGene00001748 (score: 0.076)
  • WBGene00002363 (score: 0.076)
  • WBGene00016398 (score: 0.076)
  • WBGene00020187 (score: 0.073)
  • WBGene00009101 (score: 0.073)
  • WBGene00004083 (score: 0.073)
  • WBGene00009079 (score: 0.072)
  • WBGene00004085 (score: 0.072)
  • WBGene00021113 (score: 0.071)
  • WBGene00007922 (score: 0.071)
  • WBGene00008124 (score: 0.069)
  • WBGene00009948 (score: 0.067)
  • WBGene00014158 (score: 0.065)
  • WBGene00022710 (score: 0.065)
  • WBGene00011808 (score: 0.063)
  • WBGene00011133 (score: 0.063)
  • WBGene00016081 (score: 0.062)
  • WBGene00004086 (score: 0.062)
  • WBGene00044347 (score: 0.060)
  • WBGene00020053 (score: 0.058)
  • WBGene00007700 (score: 0.058)
  • WBGene00007699 (score: 0.058)
  • WBGene00009893 (score: 0.055)
  • WBGene00012741 (score: 0.055)
  • WBGene00017817 (score: 0.055)
  • WBGene00020985 (score: 0.052)
  • WBGene00007763 (score: 0.052)
  • WBGene00016010 (score: 0.051)
  • WBGene00009054 (score: 0.051)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YNL217W (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000048679 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

APAH

From SHIGELLACYC

E. coli O157

APAH

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

Pfam (EcoliWiki Page)

PF00149 Calcineurin-like phosphoesterase

Panther (EcoliWiki Page)

PTHR11668:SF151

Superfamily (EcoliWiki Page)

SUPERFAMILY:56300

EcoCyc

EcoCyc:EG10048

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10048

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000044

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0046

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000167

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. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 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 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 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).

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