pbpD
168
class A penicillin-binding protein 4
locus
BSU_31490
Molecular weight
70.45 kDa
pI
9.31
function
bifunctional glucosyltransferase/ transpeptidase
product
penicillin-binding protein 4
essential
no
synonyms
pbpD
Outlinks
Genomic Context
Categories containing this gene/protein
List of homologs in different organisms, belongs to COG0744 (Galperin et al., 2021)
This gene is a member of the following regulons
Gene
Coordinates
3,233,911 → 3,235,785
Phenotypes of a mutant
reduced growth, morphological changes [pubmed|36993441]
a strain lacking all four class A [wiki|penicillin-binding proteins] ([gene|A8EEC896B279CFDDE9C3A6F146A04EC822E33A4F|ponA] [gene|E50D4B30C2A0987A356C988AF8A4951C0CDF6C06|pbpD] [gene|73275060537497E6A9859856C9F040763E36316B|pbpF] [gene|BDC2D775CCE7C06F5619BAC214F29CFC637FE804|pbpG]) is severely inhibited for L-form switching in the presence of D-cycloserine [pubmed|29456081]
The protein
Catalyzed reaction/ biological activity
highly active transpeptidase, responsible for about 50% of D-amino acid incorporation [pubmed|26499795]
[GlcNAc-(1→4)-Mur2Ac(oyl-L-Ala-γ-D-Glu-L-Lys-D-Ala-D-Ala)](n)-diphospho-di-trans,octa-cis-undecaprenol + β-D-GlcNAc-(1→4)-Mur2Ac(oyl-L-Ala-γ-D-Glu-L-Lys-D-Ala-D-Ala)-diphospho-di-trans,octa-cis-undecaprenol --> [GlcNAc-(1→4)-Mur2Ac(oyl-L-Ala-γ-D-Glu-L-Lys-D-Ala-D-Ala)](n+1)-diphospho-di-trans-octa-cis-undecaprenol + di-trans,octa-cis-undecaprenyl diphosphate + H+ (according to UniProt)
Preferential cleavage: (Ac)(2)-L-Lys-D-Ala-|-D-Ala. Also transpeptidation of peptidyl-alanyl moieties that are N-acyl substituents of D-alanine (according to UniProt)
Protein family
N-terminal part: [wiki|glycosyltransferase 51 family] (according to UniProt)
C-terminal part: [wiki|transpeptidase family] (according to UniProt)
Structure
[PDB|3VMA] (PBP1B from ''E. coli'', 28% identity) [Pubmed|19458048]
[AF|P40750]
Paralogous protein(s)
[protein|73275060537497E6A9859856C9F040763E36316B|pbpF], [protein|BDC2D775CCE7C06F5619BAC214F29CFC637FE804|pbpG], [protein|A8EEC896B279CFDDE9C3A6F146A04EC822E33A4F|ponA]
[wiki|Localization]
cell membrane (according to UniProt)
during vegetative growth: septal, distinct spots at periphery [pubmed|14731276]
Additional information
loss of activity at alkaline pH [pubmed|36993441]
Expression and Regulation
Operons
genes
[gene|E50D4B30C2A0987A356C988AF8A4951C0CDF6C06|pbpD]-[gene|1069B74CDD87706FA00A495AEA04BB89D79EDF21|yuxK]
description
[Pubmed|7961491]
sigma factors
[protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|sigA]: sigma factor, [Pubmed|7961491], in [regulon|protein:360F48D576DE950DF79C1A2677B7A35A8D8CC30C|sigA regulon]
additional information
the terminator is [protein|search|NusA]-dependent [ http://www.nature.com/articles/nmicrobiol20157 Reference]
Biological materials
Mutant
BKE31490 (Δ[gene|E50D4B30C2A0987A356C988AF8A4951C0CDF6C06|pbpD]::erm trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKE31490 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CACTCTCTTTTCTCCTAAAT, downstream forward: _UP4_TAAAGGATCGGAGGGGATAT
BKK31490 (Δ[gene|E50D4B30C2A0987A356C988AF8A4951C0CDF6C06|pbpD]::kan trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKK31490 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CACTCTCTTTTCTCCTAAAT, downstream forward: _UP4_TAAAGGATCGGAGGGGATAT
GFP fusion
2082 [gene|0467447B10EE7C1FDF86022AB6FBDBABFD32A9E5|trpC]2 [gene|E50D4B30C2A0987A356C988AF8A4951C0CDF6C06|pbpD]::pSG1490 (cat Pxyl-gfpa-[gene|E50D4B30C2A0987A356C988AF8A4951C0CDF6C06|pbpD]1-510) [pubmed|14731276], available in [wiki|Dirk Jan Scheffers]' lab and in the [http://bgsc.org BGSC]
References
Reviews
Original Publications
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Time of last update: 2024-12-05 06:48:20
Author of last update: Jstuelk