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dacB peptidoglycan DD-endopeptidase DacB [ Escherichia coli str. K-12 substr. MG1655 ]

Gene ID: 947693, updated on 19-Sep-2024

Summary

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Official Symbol
dacB
Official Full Name
peptidoglycan DD-endopeptidase DacB
Primary source
ECOCYC:EG10202
Locus tag
b3182
See related
ASAP:ABE-0010458
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Escherichia coli str. K-12 substr. MG1655 (strain: K-12, substrain: MG1655)
Lineage
Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia
Also known as
ECK3171
Summary
False positive lipoprotein prediction, verified SPI substrate. [More information is available at EcoGene: EG10202]. PBP4 is a penicillin-sensitive protein that catalyzes both D-alanyl-D-alanine carboxypeptidase and D-alanyl-D-alanine endopeptidase activities, though the former has been shown to occur at low levels. [More information is available at EcoCyc: EG10202].
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Genomic context

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Sequence:
NC_000913.3 (3328963..3330396)

NC_000913.3Genomic Context describing neighboring genes Neighboring gene ribosome assembly factor YhbY Neighboring gene transcription elongation factor GreA Neighboring gene GTPase ObgE Neighboring gene putative transporter YhbE

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_000913.3

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Simultaneous deletion of D-alanine carboxypeptidase IB-C and penicillin-binding component IV in a mutant of Escherichia coli K12. Iwaya M, et al. Proc Natl Acad Sci U S A, 1977 Jul. PMID 331323, Free PMC Article
  2. Mutants of Escherichia coli lacking in highly penicillin-sensitive D-alanine carboxypeptidase activity. Matsuhashi M, et al. Proc Natl Acad Sci U S A, 1977 Jul. PMID 331322, Free PMC Article
  3. Purification and light-scattering analysis of penicillin-binding protein 4 from Escherichia coli. Fusetti F, et al. Microb Drug Resist, 1996 Spring. PMID 9158725
  4. Multiple mechanisms of membrane anchoring of Escherichia coli penicillin-binding proteins. Gittins JR, et al. FEMS Microbiol Rev, 1994 Jan. PMID 8117464
  5. Purification, crystallisation and preliminary X-ray analysis of penicillin binding protein 4 from Escherichia coli, a protein related to class A beta-lactamases. Thunnissen MM, et al. J Mol Biol, 1995 Mar 24. PMID 7707365

See all (86) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Mutational analysis of the substrate specificity of Escherichia coli penicillin binding protein 4.
    Title: Mutational analysis of the substrate specificity of Escherichia coli penicillin binding protein 4.
  2. N-terminus verified by Edman degradation on mature peptide
    Title: Penicillin-binding protein 4 of Escherichia coli shows a novel type of primary structure among penicillin-interacting proteins.
  3. The crystal structure of penicillin binding protein 4 (PBP4) from Escherichia coli, which has both DD-endopeptidase and DD-carboxypeptidase activity, is presented
    Title: Crystal structure of penicillin binding protein 4 (dacB) from Escherichia coli, both in the native form and covalently linked to various antibiotics.
  4. auxiliary role in maintenance of normal rod shape of E coli
    Title: Endopeptidase penicillin-binding proteins 4 and 7 play auxiliary roles in determining uniform morphology of Escherichia coli.
Submit: New GeneRIF Correction

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by EcoCyc

Function Evidence Code Pubs
enables carboxypeptidase activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables endopeptidase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables penicillin binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables serine-type D-Ala-D-Ala carboxypeptidase activity IEA
Inferred from Electronic Annotation
more info
  
enables serine-type D-Ala-D-Ala carboxypeptidase activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables serine-type carboxypeptidase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables serine-type carboxypeptidase activity IEA
Inferred from Electronic Annotation
more info
  
enables serine-type carboxypeptidase activity ISM
Inferred from Sequence Model
more info
 PubMed 
enables serine-type endopeptidase activity ISM
Inferred from Sequence Model
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within FtsZ-dependent cytokinesis IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in cell division IEA
Inferred from Electronic Annotation
more info
  
involved_in cell wall organization IEA
Inferred from Electronic Annotation
more info
  
involved_in peptidoglycan biosynthetic process IEA
Inferred from Electronic Annotation
more info
  
involved_in peptidoglycan metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within peptidoglycan metabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in proteolysis IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of cell shape IEA
Inferred from Electronic Annotation
more info
  
involved_in response to antibiotic IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in periplasmic space IDA
Inferred from Direct Assay
more info
 PubMed 
located_in periplasmic space IEA
Inferred from Electronic Annotation
more info
  
located_in plasma membrane IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
peptidoglycan DD-endopeptidase DacB

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

  1. NC_000913.3 Reference assembly

    Range
    3328963..3330396
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NP_417649.1 peptidoglycan DD-endopeptidase DacB [Escherichia coli str. K-12 substr. MG1655]

    See identical proteins and their annotated locations for NP_417649.1

    Status: PROVISIONAL

    UniProtKB/TrEMBL
    A0A3P5DUN5, A0A8S7TGN9
    Conserved Domains (1) summary
    PRK11113
    Location:1 → 477
    PRK11113; D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional
Nucleotide Protein
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