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apaH:On One Page

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Standard Name

apaH

Gene Synonym(s)

ECK0050, b0049, JW0048, cfcB[1]

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]

Function from GO
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

DNA display    Protein display    Pubmed(apaH)    Textpresso(apaH)

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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]

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Notes

Location(s) and DNA Sequence

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

StrainMap locationGenome coordinatesGenome browsersSequence links

MG1655

1.09 minutes 

MG1655: 51222..50380
gbrowse_img.php?coord=50380..51222&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 55417..54575
gbrowse_img.php?coord=54575..55417&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 51222..50380
gbrowse_img.php?coord=50380..51222&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 51222..50380
gbrowse_img.php?coord=50380..51222&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 50380..51222
gbrowse_img.php?coord=50380..51222&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

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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 typeLocationDescription
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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.

AlleleNt change(s)AA change(s)Phenotype: TypePhenotype: DescriptionReferenceAvailabilityComments

ΔapaH (Keio:JW0048)

deletion

deletion

PMID:16738554

Shigen
CGSC8360[5]

ΔapaH761::kan

PMID:16738554

CGSC:100014


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Notes

Genetic Resources

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

ResourceResource TypeSourceNotes/Reference

JW0048

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCGCGACATACCTTATTGGCGA

Primer 2:CCAGACGCCGCCGCTTCGCCCAA

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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10048

EchoBASE (EcoliWiki Page)

EchoBASE:EB0046

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0049

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C0061

EcoGene (EcoliWiki Page)

EcoGene:EG10048

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:APAH

CGSC (EcoliWiki Page)

CGSC:17761

ASAP (EcoliWikiPage)

ASAP:ABE-0000167


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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]

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

Function

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

QualifierGO IDGO term nameReference(s)Evidence Codewith/fromAspectNotesStatus

GO:0016787

hydrolase activity

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR004843
SP_KW:KW-0378

F

Seeded from EcoCyc [7]

complete

GO:0008803

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

GO_REF:0000002
GO_REF:0000003
GO_REF:0000020

IEA: Inferred from Electronic Annotation

InterPro:IPR004617
EC:3.6.1.41
HAMAP:MF_00199

F

Seeded from EcoCyc 12.5 [8]

complete

GO:0005737

cytoplasm

C

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0015949

nucleobase, nucleoside and nucleotide interconversion

P

Seeded from EcoCyc 11.1[3].

required fields missing

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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 TypePartnerNotesReferencesEvidence

Protein

htpG

PMID:16606699

Experiment(s):EBI-1135450

Protein

intD

PMID:16606699

Experiment(s):EBI-1135450

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Notes

Localization

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

CompartmentDescriptionEvidenceSourceNotes
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Notes

Structure and Physical Properties

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

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.

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

Structures
Models

View models at:

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Structure figures

Notes

Gene Product Resources

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Resource typeSourceNotes/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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10048-MONOMER

UniProt (EcoliWiki Page)

UniProt:P05637

PFAM (EcoliWiki Page)

PFAM:PF00149

RefSeq (EcoliWiki Page)

RefSeq:NP_414591


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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

MoleculeOrganism or StrainCellular levelUnitsMediumTemperature °COther (e.g. anaerobic)Growth rateAssay usedNotesReference(s)
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Notes

Transcription and Transcriptional Regulation

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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

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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gbrowse_img.php?coord=51202..51242&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein+flip&width=400&figure=Nterm&.png
This picture shows the sequence around the N-terminus.

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

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

Allele NameMutationPhenotypeReference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

TypeReferenceNotes

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 NameResource TypeDescriptionSourceNotes
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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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10048

EchoBASE (EcoliWiki Page)

EchoBASE:EB0046

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0049

EcoGene (EcoliWiki Page)

EcoGene:EG10048


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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.

OrganismHomologs (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

Notes

Families

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DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF00149


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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 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).
  7. ↑ EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  8. ↑ EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7

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