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ampH:On One Page

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Standard Name

ampH

Gene Synonym(s)

ECK0371, b0376, JW5052, yaiH[1]

Product Desc.

penicillin-binding protein[2][3]

Probable role in peptidoglycan, cell wall synthesis, and cell morphology; penicillin-binding protein; beta-lactamase homolog with no beta-lactamase activity[4]

Product Synonyms(s)

beta-lactamase/D-alanine carboxypeptidase[1], B0376[2][1], YaiH[2][1], AmpH[2][1]

Function from GO

Biological Process

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): ampH[2]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(ampH)    Textpresso(ampH)

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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

ampH

Mnemonic

Ampicillin

Synonyms

ECK0371, b0376, JW5052, yaiH[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

8.5 minutes 

MG1655: 395511..394354
gbrowse_img.php?coord=394354..395511&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 363933..362776
gbrowse_img.php?coord=362776..363933&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 395511..394354
gbrowse_img.php?coord=394354..395511&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 334842..333685
gbrowse_img.php?coord=333685..334842&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 297113..298270
gbrowse_img.php?coord=297113..298270&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

ΔampH (Keio:JW5052)

deletion

deletion

PMID:16738554

Shigen

yaiH::Tn5KAN

PMID:12519969

ASAP

At position 944 in Minus orientation, contains plasmid pKD46.
ASAP strain name: FB20164

yaiH::Tn5KAN

PMID:12519969

ASAP

At position 944 in Minus orientation, does not contain plasmid pKD46.
ASAP strain name: FB20165

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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

JW5052

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAAACGTAGTCTGCTTTTTTC

Primer 2:CCGGACGCGGGGATAACCAACGG

mhpC281::Tn10

Linked marker

CAG12080 = CGSC7333[5]

est. P1 cotransduction: 42% [6]
Synonyms:zah-281::Tn10

zai-3053::Tn10

Linked marker

CAG18091 = CGSC7336[5]

est. P1 cotransduction: 100% [6]
Synonyms:zaj-3053::Tn10 nnnCAG18091 also carries proC9999 (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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG12867

EchoBASE (EcoliWiki Page)

EchoBASE:EB2708

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0376

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C0480

EcoGene (EcoliWiki Page)

EcoGene:EG12867

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:YAIH

ASAP (EcoliWikiPage)

ASAP:ABE-0001292


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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

AmpH

Synonyms

beta-lactamase/D-alanine carboxypeptidase[1], B0376[2][1], YaiH[2][1], AmpH[2][1]

Product description

penicillin-binding protein[2][3]

Probable role in peptidoglycan, cell wall synthesis, and cell morphology; penicillin-binding protein; beta-lactamase homolog with no beta-lactamase activity[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:0046677

response to antibiotic

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001466

P

Seeded from EcoCyc 12.5 [7]

complete

GO:0030655

beta-lactam antibiotic catabolic process

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001466

P

Seeded from EcoCyc 12.5 [7]

complete

GO:0008800

beta-lactamase activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001466

F

Seeded from EcoCyc 12.5 [7]

complete

GO:0030288

outer membrane-bounded periplasmic space

C

Seeded from Riley et al 2006 [1].

required fields missing

GO:0042493

response to drug

PMID:9324260

IDA: Inferred from Direct Assay

P

Seeded from EcoCyc 11.1[3].

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 TypePartnerNotesReferencesEvidence
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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 

MKRSLLFSAV LCAASLTSVH AAQPITEPEF ASDIVDRYAD HIFYGSGATG MALVVIDGNQ
RVFRSYGETR PGNNVRPQLD SVVRIASLTK LMTSEMLVKL LDQGTVKLND PLSKYAPPGA
RVPTYNGTPI TLVNLATHTS ALPREQPGGA AHRPVFVWPT REQRWKYLST AKLKAAPGSQ
AAYSNLAFDL LADALANASG KPYTQLFEEQ ITRPLGMKDT TYTPSPDQCR RLMVAERGAS
PCNNTLAAIG SGGVYSTPGD MMRWMQQYLS SDFYQRSNQA DRMQTLIYQR AQFTKVIGMD
VPGKADALGL GWVYMAPKEG RPGIIQKTGG GGGFITYMAM IPQKNIGAFV VVTRSPLTRF
KNMSDGINDL VTELSGNKPL VIPAS
Length

385

Mol. Wt

41.849 kDa

pI

9.9 (calculated)

Extinction coefficient

44,350 - 44,725 (calc based on 15 Y, 4 W, and 3 C residues)

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Domains/Motifs/Modification Sites

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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:EG12867-MONOMER

UniProt (EcoliWiki Page)

UniProt:P0AD70

PFAM (EcoliWiki Page)

PFAM:PF00144

RefSeq (EcoliWiki Page)

RefSeq:NP_414910


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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)

ampH

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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=395491..395531&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:b0376 (EcoliWiki Page)

NCBI GEO profiles for ampH

microarray

GenExpDB:b0376 (EcoliWiki Page)

Summary of data for ampH 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

GFP Fusion

Intergenic region (395417..395901) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ14; Well:G4[8]

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Notes

Accessions Related to ampH Expression

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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG12867

EchoBASE (EcoliWiki Page)

EchoBASE:EB2708

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0376

EcoGene (EcoliWiki Page)

EcoGene:EG12867


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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

  • WBGene00040947 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000013949 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0206504 (score: 1.000; bootstrap: 57%)
  • DDB0168304 (score: 0.389)
  • DDB0204835 (score: 0.329)
  • DDB0204836 (score: 0.308)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000005534 (score: 1.000; bootstrap: 45%)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000013893 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Mus musculus

  • MGI:2448566 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000168835 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00008482001 (score: 1.000; bootstrap: 100%)
  • GSTENP00022944001 (score: 0.598)

From Inparanoid:20070104

Shigella flexneri

YAIH

From SHIGELLACYC

E. coli O157

YAIH

From ECOO157CYC

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Do-It-Yourself Web Tools

Notes

Families

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DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF00144


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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 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 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. ↑ 7.0 7.1 7.2 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  8. ↑ Zaslaver A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat Methods 3: 623-8 PubMed EcoliWiki page

Categories

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