1ZRS,1ZL0


Conserved Protein Domain Family
Peptidase_S66

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cd07025: Peptidase_S66 
Click on image for an interactive view with Cn3D
LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein.
LD-carboxypeptidase (Muramoyltetrapeptide carboxypeptidase; EC 3.4.17.13; Merops family S66; initially described as Carboxypeptidase II) family also includes the microcin c7 self-immunity protein (MccF) as well as uncharacterized proteins including hypothetical proteins. LD-carboxypeptidase hydrolyzes the amide bond that links the dibasic amino acids to C-terminal D-amino acids. The physiological substrates of LD-carboxypeptidase are tetrapeptide fragments (such as UDP-MurNAc-tetrapeptides) that are produced when bacterial cell walls are degraded; they contain an L-configured residue (L-lysine or meso-diaminopimelic acid residue) as the penultimate residue and D-alanine as the ultimate residue. A possible role of LD-carboxypeptidase is in peptidoglycan recycling whereby the resulting tripeptide (precursor for murein synthesis) can be reconverted into peptidoglycan by attachment of preformed D-Ala-D-Ala dipeptides. Some enzymes possessing LD-carboxypeptidase activity also act as LD-transpeptidase by replacing the terminal D-Ala with another D-amino acid. MccF contributes to self-immunity towards microcin C7 (MccC7), a ribosomally encoded peptide antibiotic that contains a phosphoramidate linkage to adenosine monophosphate at its C-terminus. Its possible biological role is to defend producer cells against exogenous microcin from re-entering after having been exported. It is suggested that MccF is involved in microcin degradation or sequestration in the periplasm.
Statistics
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PSSM-Id: 132882
View PSSM: cd07025
Aligned: 203 rows
Threshold Bit Score: 158.883
Threshold Setting Gi: 62179814
Created: 8-Jan-2008
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
catalytic triaddimer interface
Conserved site includes 3 residues -Click on image for an interactive view with Cn3D
Feature 1:catalytic triad [active site]
Evidence:
  • Comment:The role of the catalytic triad residues is based on mutational studies.

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                                        
1ZRS_B        28 VALIAPASAIAt---eVLEATLRQLEVh-GVDYHLGRHvearyr-ylagtvEQRLEDLHNAFDmpditAVWCLRGGYGCG 102 Pseudomonas aer...
NP_469374      8 IGIICCSDGRKkeeekNLKRLKQVLEKefGLQVVFAKTifqtddspfsgtpEERAAELMKLYQnvdvkMIFDISGGDAAN 87  Listeria innocu...
NP_563378     12 IGVISCSNGLSiknknIIEELKLNLKSl-DIEMVEGDTlyakeynlfsgtgEEKARALEKLFLdkdikMIFDISGGDLAN 90  Clostridium per...
XP_383840     16 IAFISPSERINstlpaVVDRASAVLSNk-GYHVQTFFSedngi----qsciDNRLSEIRAAFSdpsiaAVITTIGGTTFT 90  Gibberella zeae...
YP_076246     17 VGVVAPSGPVDar-reAVEAGIRRLEAy-GFRVRTGEAlwareg-vragarETQLADLHAMWAdpevkAIFCATGGVTAI 93  Symbiobacterium...
Q97J67        12 VGIISCSDGIKkenkkRVESVVDILKSm-EIEAELSKCifreka-efsgsgSQRAKELMRLFLdkdikAIFDISGGNSAN 89  Clostridium ace...
YP_619075      3 AALVGCSNPLKaayrpVVDQLVKILEDr-GLEVVVSQFltddt---ligrgEKRARELESFFLdpemgHIFDISGGDLAN 78  Lactobacillus d...
ZP_02419604    9 VGIVCCSNGLSdsarpAVMPLENALKEl-GLKPVFSRYlyagss-vfdrtgRQRAGELMEFYRnpgirAVFDISGGDLAN 86  Anaerostipes ca...
ZP_02862804    8 IGIVACSNAINikkkkEIDELISILKNi-GLIPILSNNifsdns-ifcgsgMEKAKSLMDFYNdkeikAIFDISGGDIAN 85  Anaerofustis st...
YP_001921656  10 VGIVACSNGIDksmelKINELERTLKSi-GFKVIFSNTiykkys-vfngngKERADELMRFFEdrsikAIFDISGGDLAN 87  Clostridium bot...
Feature 1                                  #                                                     
1ZRS_B       103 QLLPg--LDWGrle--aasPRPLIGFSDISVLLSAFHrh-glPAIHGPvatglgl-------splsaprEQQERLASLAS 170 Pseudomonas aer...
NP_469374     88 QVLPy--LNYDiik---kaAKPFIGYSDLTVILNAIFakakqPGFNYLlrnlv------------seasEIQRVQFQKAF 150 Listeria innocu...
NP_563378     91 EVLDf--LDFNlik---enPKPFFGYSDLTVLLNAIYsqcdiTTYNYQlrnlv------------gkfkEEQMQNFKASF 153 Clostridium per...
XP_383840     91 ELLPaliADKElheiiranPKVVVGYSDITGLHWFLYamtglRTFYGPgavpeigepndindkntplsfCVDNLLRAIAS 170 Gibberella zeae...
YP_076246     94 TLVDg--LDYDlia---qnPKPFIGMSDITLLQAAMLrrtglVSLHASgladgl----------gspdaELEAPYLLRLL 158 Symbiobacterium...
Q97J67        90 QVLSd--LDFNiik---nnYKPYFGMSDLTVILNSIYkktglKSYHYAiynfg------------rensRLQIDRFKKSF 152 Clostridium ace...
YP_619075     79 TVLGh--LDLEqik---dsQAVFYGYSDLTTILTALAkn-gnQAVNFQlsnc-------------lvnkDLLKSGYFDRL 139 Lactobacillus d...
ZP_02419604   87 EVLTn--LDFQvir---ehLKPFFGYSDLTVIVNAVFqqtgrKSYLYQvrnlv------------mdhsEEQKKNFKDSL 149 Anaerostipes ca...
ZP_02862804   86 KILDf--LDYEvik---nnIKPFFGYSDLTTVINALYkkvgaVSYLYQvrnfv------------sefkEKQTRDFYESF 148 Anaerofustis st...
YP_001921656  88 GILEh--LNFNiir---enRKLFFGYSDLSVVINALYakcnmKTYLYQirnli------------gdysEIQIKNFKDTF 150 Clostridium bot...
Feature 1                                                                                      # 
1ZRS_B       171 Vsrlla--------gidheLPVQHlg--------------ghKQRVEGaLIGGNLtALACMAGTlgglhapagsILVLED 228 Pseudomonas aer...
NP_469374    151 Fenqi-----------ainGKSLTd-----------------FEWSVGeVVGGNIrCFLKLAGTefmpd-vsnkIIFLES 201 Listeria innocu...
NP_563378    154 Iegke----------difnLDYKWi----------------nGSHLEGiVVGGNIrCLLKLAGTkympd-fkdkILFLES 206 Clostridium per...
XP_383840    171 PkplgqlprslyyaprgapFFQDAasteppavvktsewqwlrPGKAQGrLFGGCLtVVARLGGIraiipdwrgrIVFLET 250 Gibberella zeae...
YP_076246    159 Tnpdppgplp-dwagevrpVRPGRaesaghdr---ggasgrqDSGVRGrLVGGCCnCVLHLLGTsywpd-tegaILFLEG 233 Symbiobacterium...
Q97J67       153 Iqgke----------difdFTYKWl----------------rKDVIEGeVVGGNIrCFLKLAGTeyfpn-legkVLLLEA 205 Clostridium ace...
YP_619075    140 Lagkek--------nkeldELEVTfv---------------rGSKMAGpVYGGNLrCLLKLAGTpdwpd-ftgsILLLEA 195 Lactobacillus d...
ZP_02419604  150 Lgngn----------glfqFRTRLi----------------rGTSMEGmVVGGNIrCLLKLAGTpfwpd-mqdkILFLES 202 Anaerostipes ca...
ZP_02862804  149 Flckn----------nlfdFKYKFi----------------kGDVIQGiVIGGNIrCLLKLAGTeylpd-fqnkVLFLES 201 Anaerofustis st...
YP_001921656 151 Menkt----------slldFKYEWi----------------qGNNINGvVVGGNIrCFLKLAGTeyipn-fkdkILLLES 203 Clostridium bot...
Feature 1                                                                                        
1ZRS_B       229 vge-------pyYRLERSLWQLLEsida----rqlgAICLGSFTdcprk----evahsLERIFGEYaaa-ievPLYHHLP 292 Pseudomonas aer...
NP_469374    202 lgg-------keAKIASYVAQLEQldvf----skclGIVVGEHTeaekn----geydrIGILYQQIglk-yklPVFRTKE 265 Listeria innocu...
NP_563378    207 fsg-------nsAKMVTYITQYKNlgvf----nevkGIILGEFTemere----nlkpdIVEILKRVige-iniPILKTRD 270 Clostridium per...
XP_383840    251 atnedgsggnppHRVQAAFADLIAqgvf----eeaaGLVVGRPYgydsdedretyagiIKGLLCEGrlaskkfPILFNVD 326 Gibberella zeae...
YP_076246    234 vnl-------ltSAVLRGLAQLRLagaldgvkailfGHMEGCFRdrps------plegMALAVTEAlgd-ldlPVYQTEA 299 Symbiobacterium...
Q97J67       206 lsg-------nvSNISSLVEQLSMlndf----nklsGIILGTFTqiqee----gniniLEEIILEKtkv-fniPVIKTEE 269 Clostridium ace...
YP_619075    196 yrg-------qpELVASLLEQCREtgif----nqisGVLLGTFSeldkl----kesqlPEEILLDLlpt--nlPIAKTEF 258 Lactobacillus d...
ZP_02419604  203 rgg-------evPQMVTYLNQLKQigvf----eqvnGILLGTFTameag----gclprMEELVKNTagp--giPIAKTEE 265 Anaerostipes ca...
ZP_02862804  202 rsg-------neDVMTSYLNQLNQmgvf----dkinGVILGRFSqmesk-----vkpkVEDIVLKItsd-kdiPIVKTSD 264 Anaerofustis st...
YP_001921656 204 lsg-------dvAKMTTYLTHYKQlgvf----kdikGIILGNFTemenk----qyspnIIELVKEIvnd-yniPIVKTKE 267 Clostridium bot...
Feature 1          #              
1ZRS_B       293 SGHGAQnrawPYGKTAV 309 Pseudomonas aeruginosa
NP_469374    266 IGHSVEakpcLIGAKIN 282 Listeria innocua Clip11262
NP_563378    271 LGHGADakciPIGKYLI 287 Clostridium perfringens str. 13
XP_383840    327 IGHTVPmltlPYDALAE 343 Gibberella zeae PH-1
YP_076246    300 FGHCVPnvtlPIGAVAC 316 Symbiobacterium thermophilum IAM 14863
Q97J67       270 IGHGSDskciVIGEKIK 286 Clostridium acetobutylicum
YP_619075    259 IGHRPDakaiRLGQECV 275 Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842
ZP_02419604  266 IGHGTDskclIIGKKYR 282 Anaerostipes caccae DSM 14662
ZP_02862804  265 IGHNKDskcmIIGKEIC 281 Anaerofustis stercorihominis DSM 17244
YP_001921656 268 IGHGPDskciIIGENIE 284 Clostridium botulinum E3 str. Alaska E43

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