1B65


Conserved Protein Domain Family
DmpA

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cd02253: DmpA 
Click on image for an interactive view with Cn3D
L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active heterodimeric form. The cleavage results in two polypeptide chains, with one chain containing an N-terminal nucleophile. This group represents one of the rare aminopeptidases that are not metalloenzymes. DmpA shows similarity in catalytic mechanism to N-terminal nucleophile (Ntn) hydrolases, which are enzymes that catalyze the cleavage of amide bonds through the nucleophilic attack of the side chain of an N-terminal serine, threonine, or cysteine.
Statistics
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PSSM-Id: 239071
Aligned: 30 rows
Threshold Bit Score: 398.872
Created: 22-Feb-2005
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 5 residues -Click on image for an interactive view with Cn3D
Feature 1:active site pocket [active site]
Evidence:
  • Structure:1B65; Ochrobactrum anthropi DmpA's active site pocket is formed by residues from two subunits.
  • Comment:Tyr and Asn are elements of the oxyanion hole. Ser acts as both a nucleophile and a base.

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                                       
1B65_A       17 LPFTGVTGPYNAITDVDGVGVGFQTIieneprp-grkrparSGVTAILPHMQsetpvpVYAGVHRFNGnGEMTGTHWIED 95  Ochrobactrum ant...
YP_111312    23 HVGALPAGPLRSIADVAGVTVGHATLdar---------gvqTGVSVVRPHAGdvyrdkVPAAAAVINGfGKSIGLVQVDE 93  Burkholderia pse...
YP_048262    23 GTPRSASGPHNSISDVAGVRVGHCTLaag---------evqTGVTAIVPPGEnlftqpLPCGAAVLNGfAKPVGLVQIEE 93  Erwinia carotovo...
NP_622726    11 TLGLLPTGPLNAITDVEGVTVGHVTLisgegklipgkgpvrTGVTAIVPHSGnifkekLIASCYVGNGfGKSIGLIQVKE 90  Thermoanaerobact...
YP_146176    11 SIGTLPVGRRNQITDVPGVQVGHVTIrkdvde----rtvirTGVTAVLPHGGhlflekVPAACFVLNGfGKTTGLVQVEE 86  Geobacillus kaus...
NP_103814    11 SCGILPAGAHNAITDVPGVRVGHCTLrng---------dinTGVTAILPHGGnlfrkkVTAASHVINGfGKTIGLTQVQE 81  Mesorhizobium lo...
ZP_00802413  10 RIGKGRPGPHNKITDVLGVTVGHATIkeg---------dvqTGVTAIYPHKGnlfkekVVASSHVINGfGKTQGLLQVQE 80  Alkaliphilus met...
ZP_01076810  13 TIGEMEPGAKNSITDIEGIKVGHTTVshg---------saqTGVTAIFPQDRnlfqnkITAAVHVINGfGKSMGLMQVEE 83  Marinomonas sp. ...
ZP_01170077  27 KIGTLQTGPRNSITDVEGVTVGHTTLsdg---------akqTGVTAIVPHPGnlfkekLIAATHVINGfGKSMGTIQINE 97  Bacillus sp. NRR...
AAK64706     11 PQGRLEPGPGNAITDVAGVSVGHRSLrge---------glfTGVTAILPHAGdvfrvkPRAAVEVINGfGKSAGLMQVAE 81  Sinorhizobium me...
Feature 1                                                         #                             
1B65_A       96 GGYFLGPVVITNTHGIGMAHHATVRWMVDRyastyqtddflwimPVVAETYDGALNDIngfpVTEADVRKALDNVasgPV 175 Ochrobactrum ant...
YP_111312    94 LGVLETPLALTNTFGVGALAQAQIRAAIDAnpqigr--awpsvnPLVFECNDGYLNDLhafaVTPAHYAQALADAr-rAF 170 Burkholderia pse...
YP_048262    94 LGLLQTPILLSNTLATGTLFTTLVRDAISRnpelgr--tlptvnPLALECNDGWLNDIqalaVTEHMTRHALDSAt-gSF 170 Erwinia carotovo...
NP_622726    91 LGTLETPIILTNTLSVGTAADGLIEYMLSFnedigi--ttgtvnPVVLECNDGYLNDIrgrhVKKEHVIAAIKSAk-nEF 167 Thermoanaerobact...
YP_146176    87 LGTIESPIMLTNTFSVGAVWQGTLEYMLEAtpeigd--vtgsvnIVVGECNDSYLNTArvmaVTKEHAKEAIAAAr-vEM 163 Geobacillus kaus...
NP_103814    82 LGSIETPVLLTNTLSVGTCATTLIRDAIRQnpdigr--ttgtvnPLVGECNDGPLNDIqalaISEEHALAALADAhegEV 159 Mesorhizobium lo...
ZP_00802413  81 LGAIETPILLTNTLNIGIVCDGLIEYMLEEnkeigv--ttgtvnPIIGECNDGYLNDIrgrhVQKHHVFEALEKDt-vDF 157 Alkaliphilus met...
ZP_01076810  84 MGVIETPILLTNTLSIGVASNVLIQYMLDQnkdigd--ttstvnPMVFECNDAYLNDIrgshIKPEHVMNALNNAd-sDF 160 Marinomonas sp. ...
ZP_01170077  98 LGTLESPIILTNTLGIGTAADALIQYMLESnpeigr--ttgtvnPVVCECNDMFLNDIragfIEREHVFQALQNAs-aEV 174 Bacillus sp. NRR...
AAK64706     82 IGTIETPIVLTNTFGVAACTEALVRRAISAnpaigr--ktstvnALVCECNDGSINDIqalaVTPADAEAALDAArtgPV 159 Sinorhizobium me...
Feature 1                                                 #                                     
1B65_A      176 QEGNCGGGTGMITygFKGGTGTASRVVefggrSFTIGALVQANHGqrdWLTIa-------gVPVGqhmrdgtp------- 241 Ochrobactrum ant...
YP_111312   171 ARGAVGAGRGMSCfdLKGGIGSASRVVraageAWTVGALVLANFGrlpMLTIa-------gVPVGrmiaerdaggapgag 243 Burkholderia pse...
YP_048262   171 ARGSVGAGRGMSCfsLKGGIGTASRLIpe--lNATLGVLVLANFGtlsALTLd-------gVQMGdaiapllp------- 234 Erwinia carotovo...
NP_622726   168 ETGSVGAGTGMIChgFKGGIGTASRRIeiggkVYTVGVLLLTNYGrmeDLIFn-------gKNVGrmlkeeikk------ 234 Thermoanaerobact...
YP_146176   164 EEGEVGAGTGMMCfgWKGGVGSSSRIAg---gMYTVGALVVSNFGrreELRF---------VPYVppsfde--------- 222 Geobacillus kaus...
NP_103814   160 EQGNVGAGTGMTCfgFKGGIGSASRRIal-ggGHHLGVLVLSNFGrpgDLVLpdgrrptsgQPAGde------------- 225 Mesorhizobium lo...
ZP_00802413 158 DEGSVGAGTGMTAygLKGGIGSASRRIrlsdrEYTVGVLVLSNFGkleNLLLd-------gRKIGkwidqkqkige---- 226 Alkaliphilus met...
ZP_01076810 161 KEGSVGAATGMSCykLKGGIGTASRRIklgeeEGHLGALVMTNMGqkrDLTIa-------gKQIGqdiintdg------- 226 Marinomonas sp. ...
ZP_01170077 175 EEGTAGAGTGMLCysLKGGIGTASRVMemdhgTYTLGVLVLTNFGglkDLRVn-------gKAVGvelseaiq------- 240 Bacillus sp. NRR...
AAK64706    160 EQGAVGAGSGMTAfgFKAGIGTASRRMrvgkrDFTLGTLVLANFGaagDLVLpdgrrpdprVPAGpe------------- 226 Sinorhizobium me...
Feature 1                                                                                       
1B65_A      242 -------------------------------------------------------------------------qsqlqer 248 Ochrobactrum ant...
YP_111312   244 ggqgadgarddvaaagargergergdgphgtygtygtygahgrenagtgggaagglaprrardagasspgaapdaappeq 323 Burkholderia pse...
YP_048262   235 ------------------------------------------------------------------------glapqqda 242 Erwinia carotovo...
NP_622726   235 -----------------------------------------------------------------------gkeaakedq 243 Thermoanaerobact...
YP_146176   223 ---------------------------------------------------------------------------rdvpa 227 Geobacillus kaus...
NP_103814   226 -------------------------------------------------------------------------------r 226 Mesorhizobium lo...
ZP_00802413 227 ----------------------------------------------------------------------tqkqqetedk 236 Alkaliphilus met...
ZP_01076810 227 -------------------------------------------------------------------------ddkqpde 233 Marinomonas sp. ...
ZP_01170077 241 -------------------------------------------------------------------------akeeqdk 247 Bacillus sp. NRR...
AAK64706    227 -------------------------------------------------------------------------------r 227 Sinorhizobium me...
Feature 1        #                                     ##                                       
1B65_A      249 GSIIVVLATDLPLMPHQLKRLARRASIGIGRNGTPGGNNSGDIFIAFSTANqrpmqhr-sapfldVEMVNDEp--LDTVY 325 Ochrobactrum ant...
YP_111312   324 GSIIMLVATDAPLSSRQLKRVALRAAAGLARTGSVYGHGSGDIALAFSTAYtvphda---ervslPALVADAa--LDPLF 398 Burkholderia pse...
YP_048262   243 GSIIIIMATDAPLDARQLKRIAKRAGAGLGRLGSYWGHGSGDIAVAFSTCPq-------------PQPPEDAq--LEPLL 307 Erwinia carotovo...
NP_622726   244 GSCIIVIATDAPMDAHGLERVAKRGVLGLAKTGSFMGNGSGDIAIAFSTANkichygepvmeiktISPHSGD---INKVF 320 Thermoanaerobact...
YP_146176   228 GSIMMIVATDAPLDARQLKRLAKRAAVGLARTGSHVHHGSGDIVIAFSNAYtiahfsd-svlqsvPPLVRDDaplMNELF 306 Geobacillus kaus...
NP_103814   227 GSVMIVLATDLPLEHRQLERVARRAGAGIARLGSFWGHGSGDIAIAFSTGNlvdhd----esrdlVPLLALNearIDILF 302 Mesorhizobium lo...
ZP_00802413 237 GSVIIVLATDAPLSDRQLNRISKRVTVGLARTGSEIGHGSGDIVIAFSTKNliahes--akivtkIECLAEEk--LNEFF 312 Alkaliphilus met...
ZP_01076810 234 GSIIIILATDLPLTERQLKRVAKRAILGLSRTGSYIGNGSGEVVLAFTTKNsvshyk--qatiesFNRIHEKe--LDLLF 309 Marinomonas sp. ...
ZP_01170077 248 GSVIIIVATDLPVSERQLNRIIKRTVTGLSRTGSIIGTGSGEVVIGFSTAAkiphek--padrltFSIIHEEd--IDLAF 323 Bacillus sp. NRR...
AAK64706    228 GSVIVVMATDLPLADRQLQRVARRAGAGLARLGAFWGHGSGDVALCFTTADpvehep--atafttQERLADGh--IDIAF 303 Sinorhizobium me...
Feature 1                                             
1B65_A      326 LAAVDSVEEAVVNAMIaAEDMGGTpfd--rlLVQAIDH 361 Ochrobactrum anthropi
YP_111312   399 AAAADSVEQAIVDALWrATRVTGRdg----hTRRALRD 432 Burkholderia pseudomallei K96243
YP_048262   308 SAAADATEHAVLDAMLqADAVTGFrghhrptLPQALDK 345 Erwinia carotovora subsp. atroseptica SCRI1043
NP_622726   321 QAVVEAVEEAVWDSMFtAERIVGRdy----hEAPLLPV 354 Thermoanaerobacter tengcongensis MB4
YP_146176   307 QAAVEATEEAIWNSLTmAETTTGRng----rVGEAIPY 340 Geobacillus kaustophilus HTA426
NP_103814   303 RAAAEATQEAVLNSMLsAEAFTGRagkhrasLADWLRD 340 Mesorhizobium loti MAFF303099
ZP_00802413 313 SGTIEAVEESVINSMItAETTVGRnqhcrvsLREYLDE 350 Alkaliphilus metalliredigenes QYMF
ZP_01076810 310 RAAAESTEEAILNSMItAKRTTGRhg----hTRSSLTE 343 Marinomonas sp. MED121
ZP_01170077 324 RAAGDATEEAVLNSLAaATRVVGRng----nVRPALSD 357 Bacillus sp. NRRL B-14911
AAK64706    304 RAAADTTQEAVLNALCmAPAMPARngriypcLADWLME 341 Sinorhizobium meliloti 1021

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