3MRU,2QYV


Conserved Protein Domain Family
M20_pepD

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cd03890: M20_pepD 
Click on image for an interactive view with Cn3D
M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide
Peptidase M20 family, Peptidase D (PepD, Xaa-His dipeptidase; X-His dipeptidase; aminoacylhistidine dipeptidase; dipeptidase D; Beta-alanyl-histidine dipeptidase; pepD g.p. (Escherichia coli); EC 3.4.13.3) subfamily. PepD is a cytoplasmic enzyme family characterized by its unusual specificity for the dipeptides beta-alanyl-L-histidine (L-carnosine or beta-Ala-His) and gamma-aminobutyryl histidine (L-homocarnosine or gamma-amino-butyl-His). Homocarnosine has been suggested as a precursor for the neurotransmitter gamma-aminobutyric acid (GABA), acting as a GABA reservoir, and may mediate anti-seizure effects of GABAergic therapies. It has also been reported that glucose metabolism could be influenced by L-carnosine. PepD also includes a lid domain that forms a homodimer; however, the physiological function of this extra domain remains unclear.
Statistics
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PSSM-Id: 349885
Aligned: 48 rows
Threshold Bit Score: 580.246
Created: 17-Jun-2005
Updated: 25-Oct-2021
Structure
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Program:
Drawing:
Aligned Rows:
 
metal bindingdimer interface
Conserved site includes 6 residues -Click on image for an interactive view with Cn3D
Feature 1: metal binding site [ion binding site], 6 residue positions
Conserved feature residue pattern:H D E E [ND] HClick to see conserved feature residue pattern help
Evidence:
  • Structure:2QYV: Haemophilus somnus putative Xaa-His dipeptidase binds two Zn(II) ions; contacts at 4.0A
  • Comment:Apo-PepD has also been known to bind Mn2+, Co2+, Ni2+, Cu2+, and Cd2+ ions.
  • Citation:PMID 9083113

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                                      # 
3MRU_A        13 PAPLWQFFDKICSIPHPSk------HEEALAQYIVTWATEQG-----FDVRRDPTGNVFIKKPatpgmenkkGVVLQAHI 81  Vibrio alginoly...
2QYV_A        10 PKLLWQWFDQICAIPHPSy------KEEQLAQFIINWAKTKG-----FFAERDEVGNVLIRKPatvgxenrkPVVLQAHL 78  Haemophilus som...
XP_001705176  19 AENVWETFFKICEVPHGSy------NQEQIIPFYTSFFDNLKtsisgLTYSVDGLKNIIVRVPatpgyervpGICLQGHS 92  Giardia lamblia...
XP_001707374  26 PKDLWQNFFFMCGIPHGSg------NVTAIVQALKERAEAAGl----KATIEASSGNLLIVKEadpgcenapTVCLQGHC 95  Giardia lamblia...
CBK23450      49 PKSVWEYFLKVTQIPRGSnqegenwRHKQILAFLKKTAEDLG-----YETYVDKGDNLIVRKPaypgcenkqTVCLQCHM 123 Blastocystis ho...
CBK21597      19 PKFVWKYMLAVTQIPRGSnqgdelwRHKKILNFLKTQAEELG-----CEATVVKGDNLVVRKPaspgcedkpIVCLQCHM 93  Blastocystis ho...
CBK25519      29 PTSVWKYMLAMTQVPRGSnddgerfRHKKVLAFLKQQAEDLN-----CETYVDKGENLLIRKKaypglenkpSICLQCHM 103 Blastocystis ho...
XP_652163     26 QKTYWKWFISLSEIPRPSy------HCKLFSEWILKQAERLG-----LQAKRDNFNNVCVHIPgskshenspHVILQAHM 94  Entamoeba histo...
XP_655596     28 SKVYWKWFLALDEIPRRSg------AREAPSNWLIEIAKKSG-----LEYKVDKEKNICIYVPaskgfedkpSVCIQGHY 96  Entamoeba histo...
XP_001318848  22 HQAFFKWFLALTEVHRPSf------QLEGARKTCIEWAHKLG-----ATVAEDEIGNILLSIPasaglenvkPLCIQGHL 90  Trichomonas vag...
Feature 1                                                 #                                 ##   
3MRU_A        82 DMVPqknedtdhdftqDPIQPYIDg----eWVTAkgTTLGADNGIGMASCLAVLASke----ikHGPIEVLLTIDEEAGM 153 Vibrio alginoly...
2QYV_A        79 DXVPqanegtnhnfdqDPILPYIDg----dWVKAkgTTLGADNGIGXASALAVLESnd----iaHPELEVLLTXTEERGX 150 Haemophilus som...
XP_001705176  93 DMVCvktadsshdfkkDPLMLRVVqkdgkeWLMAtgTTLGADNSIGVAIGIAILLEcakdktflHGPLELFITSDEEVGL 172 Giardia lamblia...
XP_001707374  96 DMVCskrattehdflkDPIRPRLEmtdgklCMYAngTTLGADNGIGVSAALAIACDkt----lkTGRIEVLVTIDEETTM 171 Giardia lamblia...
CBK23450     124 DMVCqaddeididftkDPIIPRIDg----kYLKAthTSLGADDGIGIATCFAVLADkt----ikHGPLEILVTRDEETGL 195 Blastocystis ho...
CBK21597      94 DMVVqknddvdidfatDPLTPRIVdn---kWLMAtgTSLGADNGIGIATCFAILEDkt----lkHGPLEVLVTRDEETGL 166 Blastocystis ho...
CBK25519     104 DMVVqknddvvinfetDPLTPRIVdn---kWLMAtgTSLGADDGIGVATCFAILSDas----lkHGPLEVLITRDEETGM 176 Blastocystis ho...
XP_652163     95 DMVSsvidgkdfdfehTPITLQVHd----tYISAdgTTLGSDDGAGLACLLALMELhpk---feHAPIEALFTVDEEPGL 167 Entamoeba histo...
XP_655596     97 DMVGtvaagvqhdftkDPIKMKLEd----gILSAqgTTLGGDDGTGVACGLAYMELrdk---fqHPALELLFTADEEIGC 169 Entamoeba histo...
XP_001318848  91 DIVSvgkfd---eqgqVFLKLEDG------KLTSgiSTIGADDGIAVAAMYALIETrdk---yqHGPLEFLITLDEEVGL 158 Trichomonas vag...
Feature 1                              #                                                         
3MRU_A       154 tGAFGLEa---GWLKGDILLNTDSEQEGEVYMGCaggiDGAMTFDITRDAipag--fitRQLTLKGLKGGHSGCDIHTGR 228 Vibrio alginoly...
2QYV_A       151 eGAIGLRp---NWLRSEILINTDTEENGEIYIGCaggeNADLELPIEYQVnnf---ehcYQVVLKGLRGGHSGVDIHTGR 224 Haemophilus som...
XP_001705176 173 lGAAGMEe---NCLTSKYLLNLDSEDFGEICVSCaggfRVTFTHTIKRVDagt---dpyYKLHLSKLSGGHSGCDIHLYR 246 Giardia lamblia...
XP_001707374 172 hGVKHMGt---DLLEAKYLLNLDSEDLGVVTIGSaggfNGNFYFNPATFKtidcdscncLSIEVKGFSGGHSGVDIHHYR 248 Giardia lamblia...
CBK23450     196 yGASDLEp---GILKATTLINVDNEDENAICIGCaggfNVELRLPTVRQIeeg---fvsRELVLNNFVGGHSGCDIHLGR 269 Blastocystis ho...
CBK21597     167 yGAAELEa---GVLKAKYMINVDSEEEGAVCVGCaggfNVHMRLPTPRQAgeg---evkKTVILNNFCGGHSGCDIGLGR 240 Blastocystis ho...
CBK25519     177 fGALELEp---GLLRSPYLINVDSEEENALCIGCaggfTVDCTLPVTRSPapk---tavLRVTLNDFRGGHSGCDIDVGR 250 Blastocystis ho...
XP_652163    168 lGAMELKeg-eLFDSAKYLINVDSEDWGEVCISSagcaQRNMTFPVKREEahg----dmVTITLEGFKGGHTGVEIQHQR 242 Entamoeba histo...
XP_655596    170 lGAAGLVpgelLTEKCKYLINVDSEDWGEVTISSagtaFRVGKVPVKFENaksg--ltsINIVVEKFNGGHSGVDIQHQR 247 Entamoeba histo...
XP_001318848 159 iGAGKLAg--pPFLKSRALLNLDSEEWGTFYTSCagglSAYYELPIKKEKveg----tgLKLHLTNLMGGHTGLLIDSGR 232 Trichomonas vag...
Feature 1                                                                                        
3MRU_A       229 GNANKLIGRFLag-----haQELDLRLVEFRGGSlRNAIPREAFVTValpaenqDKLAELFNYYTELLKTElgk---ieT 300 Vibrio alginoly...
2QYV_A       225 ANAIKVLLRFLaelq--qnqPHFDFTLANIRGGSiRNAIPRESVATLvfn-gdiTVLQSAVQKFADVIKAElal---teP 298 Haemophilus som...
XP_001705176 247 ANTIKLMARLVs--------KIPGARLCALSGGSaHNAIPGSCQAVItc---rsDITPAHIAKIWDEIYIAykp---tdP 312 Giardia lamblia...
XP_001707374 249 GNAIKIMARILdia----csLEYQGKICSIKGGTaHNAIPMDCSACLcfcgvsqAKIASFISEAKKLAEDLkteykttdS 324 Giardia lamblia...
CBK23450     270 ANPMHVLGRLLaa-----lpDADSYRVLSLECGTaHNAIPRKCVARLavraaavDAVETQLRAAFAAFAHEyal---ieP 341 Blastocystis ho...
CBK21597     241 ANPLHVMGRLLk-------aNCCPYRVISVDCGTaHNAIPRKCVVDVavpaekaECFDKCMKKHFDEFVKEyhl---ieK 310 Blastocystis ho...
CBK25519     251 ANPLHVMGRLLt-------aVNAPIRVVAIRCGTaDNAIPRKCVVEIavntdeiRQVETEISRGFDAFRREfqr---teP 320 Blastocystis ho...
XP_652163    243 ANALKWIIQLLlhe----cpITEKIKIVDFKAGHvDNAIPTKALMSIivp--dgEQLKEKITKYHQAYSVLyhgaeesnP 316 Entamoeba histo...
XP_655596    248 ANALKWVVDLIihspsllrvNKHQYHIVKFEAGHaHNAIPSHANVTIavpndiaEAVMKEIKANHEALTVLysgtsdvkP 327 Entamoeba histo...
XP_001318848 233 SNSVKWIDRILlei----qaQGIPFRLATIEGGDkHNAIPSECIATVvts--epEKFEALAKKLHDEIVKEska--ievK 304 Trichomonas vag...
Feature 1                                                                                        
3MRU_A       301 DIVTFNEEVATdaqv-----faiADQQRFIAALNACPNGVMRMSDEvegvVETSLNVGVITTee---nKVTVLCLIRSli 372 Vibrio alginoly...
2QYV_A       299 NLIFTLEKVEKpqqv-----fssQCTKNIIHCLNVLPNGVVRNSDVienvVETSLSIGVLKTed---nFVRSTXLVRSli 370 Haemophilus som...
XP_001705176 313 HAVLSVEKHTQqikp-----lsqADSDKILNFITVIPHGPIRFSPTvenfVETSFAATIVKLteg-etEFSLLGSGRSsi 386 Giardia lamblia...
XP_001707374 325 DATIVIHEQSQtchgkc-thalyVSSRSLVDFLLTCPSQVIRVSQDveglTESSMNLGKVRFsaenlpGSYIVTLSRSsv 403 Giardia lamblia...
CBK23450     342 TASFALQAVEDarpp-----cdkQSTQRLVGFLNACPFGPQRFSPVveglVETSMTCAIGTTed--ldCLKFTVSVRSss 414 Blastocystis ho...
CBK21597     311 TATLDIVESKSelep-----ltaEATQKFVNFINVYPFAVMRYSPSvkgdIETSTTLAIGRMdk--peEFFFVASVRSfa 383 Blastocystis ho...
CBK25519     321 AAKLEIETKPTdetpvdetpiddDASRRLLHFLNVCPFGVQRYSPAvksdVETSLTCAIAQSsp---rEVGFVVSVRSsv 397 Blastocystis ho...
XP_652163    317 SITVTVEKGITrna------vpiTESANILFLLNYLSHGVVRFSPDvpdlVETSNSLSIAKLne---kELFVCTLSRSsn 387 Entamoeba histo...
XP_655596    328 EINVSSTPLAEgtqi-----vsyTSTCNCLQLVEKLPHGVLRFSEDveglVETSQSVSIGKLeg---nTFNITIFARSsk 399 Entamoeba histo...
XP_001318848 305 GPKLAIEKVDVplc------lceCCHNKVLDLLSSIYHGVWEMHPEikgiVRTSQSMSITRTkd---dVLYVQVYARSne 375 Trichomonas vag...
Feature 1                                                                                        
3MRU_A       373 dsGRSQVEGMLQSVAEla--gaQIEFSGAYPGWKPdadSEIMAIFRDMyEGIYGHKPn-IMVIHAGLECGLFKEp--yPN 447 Vibrio alginoly...
2QYV_A       371 esGKSYVASLLKSLASla--qgNINLSGDYPGWEPqshSDILDLTKTIyAQVLGTDPe-IKVIHAGLECGLLKKi--yPT 445 Haemophilus som...
XP_001705176 387 esELDGVYERLKALASlag-fsISEQQSRYPGWPAnmeSVFLKQAIEShETLIGFKPh-VGAVHAGLEAGLICKk--cPG 462 Giardia lamblia...
XP_001707374 404 nsYLDANDKMLAGLARmarifkYSGKLDPYGGWTPnphSKLLEICKRHyADALGGKEpiVEAIHAGLECGEIISr--yPS 481 Giardia lamblia...
CBK23450     415 ksQIDFMYRKLECLCAmag-maISQRIGEYPGWDPdpeSKVTKVMEKIyAELYGKQPw-VYACHAGLECGLIMQk--yPG 490 Blastocystis ho...
CBK21597     384 qsQMDMMYNKIRCICEmgg-lqLSERIGAYPGWEPnmdSPLTKDLVAAyTEATGKAPr-VYAIHAGLECGLFMEk--yPE 459 Blastocystis ho...
CBK25519     398 ssQLDWMYGRLRCLADlcg-maISPRKSEYPAWEPkesSPLTKAMVAAyREAVGVEPr-VYSIHAGLECGVFLEk--yPM 473 Blastocystis ho...
XP_652163    388 ndYLKDITECIEEIAKlhg-gsISIPTPDVGGWPAkphCHLVDEILRVyKKLYNEEMk-VVAIHAGLENSIILNqypsFD 465 Entamoeba histo...
XP_655596    400 deDMLTLVEADYKMFKchg-atFEKAVDDACGWPAepnNHLLKTLKECyKEMYKSEIk-TVAIHAGLENSIIMEkyknLN 477 Entamoeba histo...
XP_001318848 376 atRMYWLVNQNKSLARavgcpiRIPEEEIQGPWPAalkARITEIAKESyHKLYNAYPe-ITAIHAGLECGCIQNrg-yPD 453 Trichomonas vag...
Feature 1                     #                         
3MRU_A       448 MDMVSFGPTIKFPHSPDEKVkIDTVQLFWDQMVALLEAI 486 Vibrio alginolyticus
2QYV_A       446 IDXVSIGPTIRNAHSPDEKVhIPAVETYWKVLTGILAHI 484 Haemophilus somnus 129PT
XP_001705176 463 MDAISIGPTIKNPHSPQEALeISTVAPIYRLTRAIVSEL 501 Giardia lamblia ATCC 50803
XP_001707374 482 MEAISIGPTIRNPHSDSELCeVETVLPFYNVVKGIVSEI 520 Giardia lamblia ATCC 50803
CBK23450     491 MDCTSVGPEVNFPHSPDERClISSVPPFMEVIRRTLEEL 529 Blastocystis hominis
CBK21597     460 LDCSSIGPELQFPHSPQERLlIESVPRFWKVLTLALEKL 498 Blastocystis hominis
CBK25519     474 IDCVSIGPTVLNPHSPEERLeIETVPRFYKVVVKALEKL 512 Blastocystis hominis
XP_652163    466 LESVSIGPTCKNVHTPDETMdIESGNKLLDLICTLLSEL 504 Entamoeba histolytica HM-1:IMSS
XP_655596    478 LHSISLGPSVHDVHTPKEHVhVETATQLYALLISVMEKL 516 Entamoeba histolytica HM-1:IMSS
XP_001318848 454 LECVSYGPTIHGAHSVEESVtVETACKCFNLTLEIIKAW 492 Trichomonas vaginalis G3

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