UniProtKB - P33013 (DACD_ECOLI)
Protein
D-alanyl-D-alanine carboxypeptidase DacD
Gene
dacD
Organism
Escherichia coli (strain K12)
Status
Functioni
Removes C-terminal D-alanyl residues from sugar-peptide cell wall precursors.
Catalytic activityi
- Preferential cleavage: (Ac)(2)-L-Lys-D-Ala-|-D-Ala. Also transpeptidation of peptidyl-alanyl moieties that are N-acyl substituents of D-alanine. EC:3.4.16.4
: peptidoglycan biosynthesis Pathwayi
This protein is involved in the pathway peptidoglycan biosynthesis, which is part of Cell wall biogenesis.View all proteins of this organism that are known to be involved in the pathway peptidoglycan biosynthesis and in Cell wall biogenesis.
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Active sitei | 63 | Acyl-ester intermediateBy similarity | 1 | |
Active sitei | 66 | Proton acceptorBy similarity | 1 | |
Active sitei | 129 | By similarity | 1 | |
Binding sitei | 232 | SubstrateBy similarity | 1 |
GO - Molecular functioni
- beta-lactamase activity Source: EcoCyc
- carboxypeptidase activity Source: EcoCyc
- endopeptidase activity Source: GO_Central
- penicillin binding Source: EcoCyc
- serine-type D-Ala-D-Ala carboxypeptidase activity Source: EcoCyc
GO - Biological processi
- cell wall organization Source: UniProtKB-KW
- peptidoglycan biosynthetic process Source: UniProtKB-UniPathway
- peptidoglycan metabolic process Source: EcoCyc
- regulation of cell shape Source: EcoCyc
Keywordsi
Molecular function | Carboxypeptidase, Hydrolase, Protease |
Biological process | Cell shape, Cell wall biogenesis/degradation, Peptidoglycan synthesis |
Enzyme and pathway databases
BioCyci | EcoCyc:RPOA-MONOMER MetaCyc:RPOA-MONOMER |
UniPathwayi | UPA00219 |
Protein family/group databases
MEROPSi | S11.009 |
Names & Taxonomyi
Protein namesi | Recommended name: D-alanyl-D-alanine carboxypeptidase DacD (EC:3.4.16.4)Short name: DD-carboxypeptidase Short name: DD-peptidase Alternative name(s): Penicillin-binding protein 6b Short name: PBP-6b |
Gene namesi | Name:dacD Synonyms:phsE, yeeC Ordered Locus Names:b2010, JW5329 |
Organismi | Escherichia coli (strain K12) |
Taxonomic identifieri | 83333 [NCBI] |
Taxonomic lineagei | Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Escherichia › |
Proteomesi |
|
Subcellular locationi
- Cell inner membrane Curated; Peripheral membrane protein Curated Note: N-terminal lies in the periplasmic space.Curated
GO - Cellular componenti
- plasma membrane Source: UniProtKB-SubCell
Keywords - Cellular componenti
Cell inner membrane, Cell membrane, MembranePTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Signal peptidei | 1 – 21 | Sequence analysisAdd BLAST | 21 | |
ChainiPRO_0000027234 | 22 – 388 | D-alanyl-D-alanine carboxypeptidase DacDAdd BLAST | 367 |
Proteomic databases
PaxDbi | P33013 |
PRIDEi | P33013 |
Interactioni
Protein-protein interaction databases
BioGRIDi | 4260413, 266 interactors |
STRINGi | 511145.b2010 |
Structurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
SMRi | P33013 |
ModBasei | Search... |
PDBe-KBi | Search... |
Family & Domainsi
Sequence similaritiesi
Belongs to the peptidase S11 family.Curated
Keywords - Domaini
SignalPhylogenomic databases
eggNOGi | COG1686, Bacteria |
HOGENOMi | CLU_027070_8_1_6 |
InParanoidi | P33013 |
PhylomeDBi | P33013 |
Family and domain databases
Gene3Di | 2.60.410.10, 1 hit 3.40.710.10, 1 hit |
InterProi | View protein in InterPro IPR012338, Beta-lactam/transpept-like IPR015956, Peniciliin-bd_prot_C_sf IPR018044, Peptidase_S11 IPR012907, Peptidase_S11_C IPR037167, Peptidase_S11_C_sf IPR001967, Peptidase_S11_N |
Pfami | View protein in Pfam PF07943, PBP5_C, 1 hit PF00768, Peptidase_S11, 1 hit |
PRINTSi | PR00725, DADACBPTASE1 |
SMARTi | View protein in SMART SM00936, PBP5_C, 1 hit |
SUPFAMi | SSF56601, SSF56601, 1 hit SSF69189, SSF69189, 1 hit |
i Sequence
Sequence statusi: Complete.
: The displayed sequence is further processed into a mature form. Sequence processingi
P33013-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MKRRLIIAAS LFVFNLSSGF AAENIPFSPQ PPEIHAGSWV LMDYTTGQIL
60 70 80 90 100
TAGNEHQQRN PASLTKLMTG YVVDRAIDSH RITPDDIVTV GRDAWAKDNP
110 120 130 140 150
VFVGSSLMFL KEGDRVSVRD LSRGLIVDSG NDACVALADY IAGGQRQFVE
160 170 180 190 200
MMNNYAEKLH LKDTHFETVH GLDAPGQHSS AYDLAVLSRA IIHGEPEFYH
210 220 230 240 250
MYSEKSLTWN GITQQNRNGL LWDKTMNVDG LKTGHTSGAG FNLIASAVDG
260 270 280 290 300
QRRLIAVVMG ADSAKGREEE ARKLLRWGQQ NFTTVQILHR GKKVGTERIW
310 320 330 340 350
YGDKENIDLG TEQEFWMVLP KAEIPHIKAK YTLDGKELTA PISAHQRVGE
360 370 380
IELYDRDKQV AHWPLVTLES VGEGSMFSRL SDYFHHKA
Sequence cautioni
The sequence AAA16416 differs from that shown. Reason: Erroneous initiation. Truncated N-terminus.Curated
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U00009 Genomic DNA Translation: AAA16416.1 Different initiation. U00096 Genomic DNA Translation: AAC75071.2 AP009048 Genomic DNA Translation: BAA15838.2 |
PIRi | A64966 |
RefSeqi | NP_416514.4, NC_000913.3 WP_000830156.1, NZ_LN832404.1 |
Genome annotation databases
EnsemblBacteriai | AAC75071; AAC75071; b2010 BAA15838; BAA15838; BAA15838 |
GeneIDi | 946518 |
KEGGi | ecj:JW5329 eco:b2010 |
PATRICi | fig|1411691.4.peg.242 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U00009 Genomic DNA Translation: AAA16416.1 Different initiation. U00096 Genomic DNA Translation: AAC75071.2 AP009048 Genomic DNA Translation: BAA15838.2 |
PIRi | A64966 |
RefSeqi | NP_416514.4, NC_000913.3 WP_000830156.1, NZ_LN832404.1 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
5FSR | X-ray | 2.40 | A/B | 22-374 | [»] | |
SMRi | P33013 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 4260413, 266 interactors |
STRINGi | 511145.b2010 |
Protein family/group databases
MEROPSi | S11.009 |
Proteomic databases
PaxDbi | P33013 |
PRIDEi | P33013 |
Genome annotation databases
EnsemblBacteriai | AAC75071; AAC75071; b2010 BAA15838; BAA15838; BAA15838 |
GeneIDi | 946518 |
KEGGi | ecj:JW5329 eco:b2010 |
PATRICi | fig|1411691.4.peg.242 |
Organism-specific databases
EchoBASEi | EB1839 |
Phylogenomic databases
eggNOGi | COG1686, Bacteria |
HOGENOMi | CLU_027070_8_1_6 |
InParanoidi | P33013 |
PhylomeDBi | P33013 |
Enzyme and pathway databases
UniPathwayi | UPA00219 |
BioCyci | EcoCyc:RPOA-MONOMER MetaCyc:RPOA-MONOMER |
Miscellaneous databases
PROi | PR:P33013 |
Family and domain databases
Gene3Di | 2.60.410.10, 1 hit 3.40.710.10, 1 hit |
InterProi | View protein in InterPro IPR012338, Beta-lactam/transpept-like IPR015956, Peniciliin-bd_prot_C_sf IPR018044, Peptidase_S11 IPR012907, Peptidase_S11_C IPR037167, Peptidase_S11_C_sf IPR001967, Peptidase_S11_N |
Pfami | View protein in Pfam PF07943, PBP5_C, 1 hit PF00768, Peptidase_S11, 1 hit |
PRINTSi | PR00725, DADACBPTASE1 |
SMARTi | View protein in SMART SM00936, PBP5_C, 1 hit |
SUPFAMi | SSF56601, SSF56601, 1 hit SSF69189, SSF69189, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | DACD_ECOLI | |
Accessioni | P33013Primary (citable) accession number: P33013 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | February 1, 1994 |
Last sequence update: | July 15, 1998 | |
Last modified: | December 2, 2020 | |
This is version 165 of the entry and version 3 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
- 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