UniProtKB - P76008 (LDCA_ECOLI)
Protein
Murein tetrapeptide carboxypeptidase
Gene
ldcA
Organism
Escherichia coli (strain K12)
Status
Functioni
Releases the terminal D-alanine residue from the cytoplasmic tetrapeptide recycling product L-Ala-gamma-D-Glu-meso-Dap-D-Ala. To a lesser extent, can also cleave D-Ala from murein derivatives containing the tetrapeptide, i.e. MurNAc-tetrapeptide, UDP-MurNAc-tetrapeptide, GlcNAc-MurNAc-tetrapeptide, and GlcNAc-anhMurNAc-tetrapeptide. Does not act on murein sacculi or cross-linked muropeptides. The tripeptides produced by the LcdA reaction can then be reused as peptidoglycan building blocks; LcdA is thereby involved in murein recycling. Is also essential for viability during stationary phase.2 Publications
Catalytic activityi
- H2O + N-acetyl-D-glucosaminyl-N-acetylmuramoyl-L-alanyl-D-glutamyl-6-carboxy-L-lysyl-D-alanine = D-alanine + N-acetyl-D-glucosaminyl-N-acetylmuramoyl-L-alanyl-D-glutamyl-6-carboxy-L-lysyl1 PublicationEC:3.4.17.131 Publication
Activity regulationi
Inhibited by beta-lactams containing a D-amino acid side chain.1 Publication
: peptidoglycan recycling Pathwayi
This protein is involved in the pathway peptidoglycan recycling, which is part of Cell wall biogenesis.1 PublicationView all proteins of this organism that are known to be involved in the pathway peptidoglycan recycling and in Cell wall biogenesis.
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Active sitei | 106 | NucleophileBy similarity | 1 | |
Active sitei | 200 | Charge relay systemBy similarity | 1 | |
Active sitei | 270 | Charge relay systemBy similarity | 1 |
GO - Molecular functioni
- carboxypeptidase activity Source: EcoCyc
- serine-type peptidase activity Source: UniProtKB-KW
GO - Biological processi
- cell wall organization Source: UniProtKB-KW
- glycopeptide catabolic process Source: EcoCyc
- peptidoglycan biosynthetic process Source: UniProtKB-KW
- peptidoglycan turnover Source: EcoCyc
- regulation of cell shape Source: UniProtKB-KW
Keywordsi
Molecular function | Carboxypeptidase, Hydrolase, Protease, Serine protease |
Biological process | Cell shape, Cell wall biogenesis/degradation, Peptidoglycan synthesis |
Enzyme and pathway databases
BioCyci | EcoCyc:G6621-MONOMER MetaCyc:G6621-MONOMER |
UniPathwayi | UPA00544 |
Protein family/group databases
MEROPSi | S66.002 |
Names & Taxonomyi
Protein namesi | Recommended name: Murein tetrapeptide carboxypeptidase (EC:3.4.17.13)Alternative name(s): LD-carboxypeptidase A Muramoyltetrapeptide carboxypeptidase |
Gene namesi | Name:ldcA Synonyms:ycgQ Ordered Locus Names:b1192, JW1181 |
Organismi | Escherichia coli (strain K12) |
Taxonomic identifieri | 83333 [NCBI] |
Taxonomic lineagei | Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Escherichia › |
Proteomesi |
|
Subcellular locationi
- Cytoplasm 1 Publication
GO - Cellular componenti
- cytosol Source: EcoCyc
Keywords - Cellular componenti
CytoplasmPathology & Biotechi
Disruption phenotypei
Bacteriolysis during the stationary growth phase. Cells lacking this gene also accumulate UDP-MurNAc-tetrapeptide, an unusual compound that normally is not present at significant levels in E.coli cells.1 Publication
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000172837 | 1 – 304 | Murein tetrapeptide carboxypeptidaseAdd BLAST | 304 |
Proteomic databases
jPOSTi | P76008 |
PaxDbi | P76008 |
PRIDEi | P76008 |
Interactioni
Protein-protein interaction databases
BioGRIDi | 4259643, 325 interactors 850123, 1 interactor |
DIPi | DIP-10085N |
IntActi | P76008, 4 interactors |
STRINGi | 511145.b1192 |
Structurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
SMRi | P76008 |
ModBasei | Search... |
PDBe-KBi | Search... |
Family & Domainsi
Sequence similaritiesi
Belongs to the peptidase S66 family.Curated
Phylogenomic databases
eggNOGi | COG1619, Bacteria |
HOGENOMi | CLU_034346_0_1_6 |
InParanoidi | P76008 |
PhylomeDBi | P76008 |
Family and domain databases
Gene3Di | 3.40.50.10740, 1 hit 3.50.30.60, 1 hit |
InterProi | View protein in InterPro IPR027461, Carboxypeptidase_A_C_sf IPR029062, Class_I_gatase-like IPR027478, LdcA_N IPR040449, Peptidase_S66_N IPR040921, Peptidase_S66C IPR003507, S66_fam |
PANTHERi | PTHR30237, PTHR30237, 1 hit |
Pfami | View protein in Pfam PF02016, Peptidase_S66, 1 hit PF17676, Peptidase_S66C, 1 hit |
PIRSFi | PIRSF028757, LD-carboxypeptidase, 1 hit |
SUPFAMi | SSF141986, SSF141986, 1 hit SSF52317, SSF52317, 1 hit |
i Sequence
Sequence statusi: Complete.
P76008-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MSLFHLIAPS GYCIKQHAAL RGIQRLTDAG HQVNNVEVIA RRCERFAGTE
60 70 80 90 100
TERLEDLNSL ARLTTPNTIV LAVRGGYGAS RLLADIDWQA LVARQQHDPL
110 120 130 140 150
LICGHSDFTA IQCGLLAHGN VITFSGPMLV ANFGADELNA FTEHHFWLAL
160 170 180 190 200
RNETFTIEWQ GEGPTCRAEG TLWGGNLAML ISLIGTPWMP KIENGILVLE
210 220 230 240 250
DINEHPFRVE RMLLQLYHAG ILPRQKAIIL GSFSGSTPND YDAGYNLESV
260 270 280 290 300
YAFLRSRLSI PLITGLDFGH EQRTVTLPLG AHAILNNTRE GTQLTISGHP
VLKM
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U00096 Genomic DNA Translation: AAC74276.1 AP009048 Genomic DNA Translation: BAA36050.1 |
PIRi | E64865 |
RefSeqi | NP_415710.1, NC_000913.3 WP_000051560.1, NZ_SSZK01000010.1 |
Genome annotation databases
EnsemblBacteriai | AAC74276; AAC74276; b1192 BAA36050; BAA36050; BAA36050 |
GeneIDi | 945756 |
KEGGi | ecj:JW1181 eco:b1192 |
PATRICi | fig|1411691.4.peg.1094 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U00096 Genomic DNA Translation: AAC74276.1 AP009048 Genomic DNA Translation: BAA36050.1 |
PIRi | E64865 |
RefSeqi | NP_415710.1, NC_000913.3 WP_000051560.1, NZ_SSZK01000010.1 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
5Z01 | X-ray | 1.75 | A | 1-304 | [»] | |
5Z03 | X-ray | 1.75 | A/B | 1-304 | [»] | |
SMRi | P76008 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 4259643, 325 interactors 850123, 1 interactor |
DIPi | DIP-10085N |
IntActi | P76008, 4 interactors |
STRINGi | 511145.b1192 |
Protein family/group databases
MEROPSi | S66.002 |
Proteomic databases
jPOSTi | P76008 |
PaxDbi | P76008 |
PRIDEi | P76008 |
Genome annotation databases
EnsemblBacteriai | AAC74276; AAC74276; b1192 BAA36050; BAA36050; BAA36050 |
GeneIDi | 945756 |
KEGGi | ecj:JW1181 eco:b1192 |
PATRICi | fig|1411691.4.peg.1094 |
Organism-specific databases
EchoBASEi | EB3657 |
Phylogenomic databases
eggNOGi | COG1619, Bacteria |
HOGENOMi | CLU_034346_0_1_6 |
InParanoidi | P76008 |
PhylomeDBi | P76008 |
Enzyme and pathway databases
UniPathwayi | UPA00544 |
BioCyci | EcoCyc:G6621-MONOMER MetaCyc:G6621-MONOMER |
Miscellaneous databases
PROi | PR:P76008 |
Family and domain databases
Gene3Di | 3.40.50.10740, 1 hit 3.50.30.60, 1 hit |
InterProi | View protein in InterPro IPR027461, Carboxypeptidase_A_C_sf IPR029062, Class_I_gatase-like IPR027478, LdcA_N IPR040449, Peptidase_S66_N IPR040921, Peptidase_S66C IPR003507, S66_fam |
PANTHERi | PTHR30237, PTHR30237, 1 hit |
Pfami | View protein in Pfam PF02016, Peptidase_S66, 1 hit PF17676, Peptidase_S66C, 1 hit |
PIRSFi | PIRSF028757, LD-carboxypeptidase, 1 hit |
SUPFAMi | SSF141986, SSF141986, 1 hit SSF52317, SSF52317, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | LDCA_ECOLI | |
Accessioni | P76008Primary (citable) accession number: P76008 Secondary accession number(s): O87499 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | May 30, 2000 |
Last sequence update: | February 1, 1997 | |
Last modified: | December 2, 2020 | |
This is version 148 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Prokaryotic Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structure, Reference proteomeDocuments
- Uncharacterized protein families (UPF)
List of uncharacterized protein family (UPF) entries - PATHWAY comments
Index of metabolic and biosynthesis pathways - PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families - Peptidase families
Classification of peptidase families and list of entries