2OO0,2PLJ,1D7K,1F3T,3BTN,1QU4,2TOD,2ON3,3BTN


Conserved Protein Domain Family
PLPDE_III_ODC

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cd00622: PLPDE_III_ODC 
Click on image for an interactive view with Cn3D
Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase
This subfamily is composed mainly of eukaryotic ornithine decarboxylases (ODC, EC 4.1.1.17) and ODC-like enzymes from prokaryotes represented by Vibrio vulnificus LysineOrnithine decarboxylase. These are fold type III PLP-dependent enzymes that differ from most bacterial ODCs which are fold type I PLP-dependent enzymes. ODC participates in the formation of putrescine by catalyzing the decarboxylation of ornithine, the first step in polyamine biosynthesis. Members of this subfamily contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity. Also members of this subfamily are proteins with homology to ODC but do not possess any catalytic activity, the Antizyme inhibitor (AZI) and ODC-paralogue (ODC-p). AZI binds to the regulatory protein Antizyme with a higher affinity than ODC and prevents ODC degradation. ODC-p is a novel ODC-like protein, present only in mammals, that is specifically exressed in the brain and testes. ODC-p may function as a tissue-specific antizyme inhibitory protein.
Statistics
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PSSM-Id: 143482
View PSSM: cd00622
Aligned: 105 rows
Threshold Bit Score: 343.707
Threshold Setting Gi: 66045783
Created: 7-Mar-2002
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 15 residues -Click on image for an interactive view with Cn3D
Feature 1:active site [active site]
Evidence:
  • Comment:The active site is composed of residues from both subunits of the dimer. There are two active sites in the functional dimer.
  • Structure:1F3T_AB; Trypanosoma Brucei Ornithine decarboxylase dimer binds two cofactor-substrate (PLP-putrescine) complexes; defined at 4A contacts.
    View structure with Cn3D
  • Structure:2PLJ_AB; Vibrio vulnificus LysineOrnithine decarboxylase dimer binds two PLP-putrescine complexes; defined at 4A contacts.
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                      # #                  #                            
2OO0_A        47 KDAFYVADLGDILKKHLRWLKALPrVTPFYAVKCNDSKAIVKTLAATGTGFDCASKTEIQLVQSLGVppERIIYANPCKQ 126
gi 58038915   15 ATPCLVVDLDVVGAHYRALHDALPeAKIYYAIKANPAPAILDRLVALGSSFDVASPAEIRMCLDAGAtpDRISYGNTLKK 94
gi 162147147  80 ATPCLVVDVDRVEARYQSLRAALPlARIYYAVKANPAPAILRRLVSLGSAFDAASWEEIRLCLAAGAagADISFGNTVKK 159
gi 148261170  15 STPAILVDLDRVAANFAALRAALPdAAIYYAVKANPAAPVLDRLVGLGSRFDAASIEEIRACLAAGAapAAISFGNTVKK 94
gi 126740499  44 ARPTLVVDLDAVAAQYRALEAGLGrARIHYAVKANPEAAILKRLVALGAHFDAAGRAEIDMCLAAGAtaAQISFGNTIKR 123
gi 121534334  20 GTPLLVLSRDQIRYNYNFLAEHLPgVHIYYAMKANPDPRIIDELAGLGACFDVASDGEILALAQMGIapERIVYANPVKT 99
gi 117621391  18 GSPLLLLDKAAVRKQYRALAAALPdVRLHYALKPLPHEAVVSVLKEEGACFDLATNGEVDLVRSQGVrpGRCIHTHPIKR 97
gi 13124043   19 PTPFLVASLDKVEENYQFMRRHLPrAGVFYAMKANPTPEILSLLAGLGSHFDVASAGEMEILHELGVdgSQMIYANPVKD 98
gi 32475383   42 GTPLLVVSRSKAIETYWAMKNALPgVDLYYAAKANPDLHFLSTLNGENAFIDVCSPGELKAALAAGFtpDRMLHTHPCKT 121
2PLJ_A        54 GAPLLLLDCDVIRQQYRALKNALPnVTLHYALKPLPHPVVVRTLLAEGASFDLATTGEVELVASEGVpaDLTIHTHPIKR 133
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                             #                                          
2OO0_A       127 vSQIKYAANNgVQMMTFDSEVELMKVARahpKAKLVLRIATDDSKavCRLSVKFGATLRTSRLLLERAKelNIDVVGVSF 206
gi 58038915   95 aEWIREAHDLgISLFVFDSIEELEKLAKhapGARVFCRLAVENEGadWPLSRKFGTTLSNARALMLRARdlGLKPYGLSF 174
gi 162147147 160 aSAIAQAHQAgVTMFAFDSIEELEKLARhapGSRVYCRLIVENEGaeWPLSRKFGTTLDSARDLMLRARdmGLDPYGLSF 239
gi 148261170  95 rAAIAEAHARgVDLFAFDSDEELDKLAEaapGAKVYCRLAVSQDGadWPLSRKFGTSGTHARDLLVRAAerGLIPWGVSF 174
gi 126740499 124 pADIAYAHACgITHFAFDASEELEKIAThapGAEVCLRIIVENCEadWPLSRKFGCAPEDALRLMDQARglGLVVNGLSF 203
gi 121534334 100 aSGLAAARQTgVRKFTFDSESEIYKMAKavpGGTVLLRVRVDNPHalVDLNKKFGAHPDEALRLLTIAReqGLDVAGLCF 179
gi 117621391  98 dSDIRYALEYgCTVFVYDNPLELEKFIPykdEVKLLLRVSFPNPEtkVDLSKKFGCTPEQALPLLQLAHakGIKVMGLSF 177
gi 13124043   99 aRGLKAAADYnVRRFTFDDPSEIDKMAKavpGADVLVRIAVRNNKalVDLNTKFGAPVEEALDLLKAAQdaGLHAMGICF 178
gi 32475383  122 dANLWECYEAgVNWFVFDNPIEAEKIRRltpDVNLLLRLATTGASsrINLSAKFGCPMHEALELLATAKakGLKVRGFSF 201
2PLJ_A       134 dADIRDALAYgCNVFVVDNLNELEKFKAyrdDVELLVRLSFRNSEafADLSKKFGCSPEQALVIIETAKewNIRIKGLSF 213
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1        #  #                                    ##                                      
2OO0_A       207 HVGSGCtDPETFVQAISDARCVFDMGae-vGFSMYLLDIGGGFPGsed--vklKFEEITGVINPALDKYFPsdsgVRIIA 283
gi 58038915  175 HVGSQQtGVAAYDHAIAKAAGLYHDLra-qGVDLQMLNLGGGFPThyre-nvpSVQDFADTIHASLRTHFPdg-aPEILL 251
gi 162147147 240 HVGSQQtSTDAYEAAIARVGMLFTDLaa-aGLNLRMVNLGGGFPIryre-dvpEIDRFAVAISHAMTEHFGnd-lPEMIV 316
gi 148261170 175 HVGSQQtGVGAWRTAIGQAAAVFTDLra-rGIDLRLLNLGGGFPTryrd-dipPLGDFGAAIMDTVRQAFGnn-vPDLLI 251
gi 126740499 204 HVGSQTrEPDMWVPVLDQAAAIWRQAre-aGHALRLVNIGGGFPAsydq-qmqGAEAYAREVMKQVEARFGe--aAEIMA 279
gi 121534334 180 HVGSQStDAGAYVDALAACRRIFDAAak-eGFNLRILDIGGGFPIpaig-mkvDAAAMMGQIRTALAQYFPn---TEIWA 254
gi 117621391 178 HVGSQVpHARRHVQAIDACREIMEQAwe-lGLKPWVLDIGGGFPVdyeg-gefDIDGFCAPIREALAKLPAt---VQKIA 252
gi 13124043  179 HVGSQSlSTAAYEEALLVARRLFDEAee-mGMHLTDLDIGGGFPVpdakglnvDLAAMMEAINKQIDRLFPd---TAVWT 254
gi 32475383  202 HVGSQClNPQDYVEVLRSVREVWDEAtk-aGHHLEVLDIGGGFPApyre-dapSIEAFGEVITNGLREIFGdl-pIRLIA 278
2PLJ_A       214 HVGSQTtNPNKYVEAIHTCRHVMEQVvergLPALSTLDIGGGFPVnytq-qvmPIDQFCAPINEALSLLPEt---VHVLA 289
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1        ####                                                      #                     
2OO0_A       284 EPGRYYVASAFTLAVNIIAKKIVlkeqtgsddedesseqtfMYYVNDGVYGSFNCilYDHAHVKPLLQKrpkpdeKYYSS 363
gi 58038915  252 EPGRYMVGQSGVVSSEVILVSRRggav----------tdprWVYLDIGRFGGLAEteGEAIRYTFRTSRdsd-daTCSPC 320
gi 162147147 317 EPGRFIVGDAGVVSSEVVLVTRRgqqd-----------gprWVYLDIGRFGGLAEteGESIRYGIRTPHdg---sPAGRV 382
gi 148261170 252 EPGRAIVGDAGVAVSEVVLACTRhede-----------grrWVYLDLGRFGGLAEteGEAIRYRITAPGva---gADAPA 317
gi 126740499 280 EPGRGLVAEAGAIAAEVLLVSKKhend-----------lhrWVYLDVGKFSGLAEtmDEAIRYRITTDRdh---eAKGPC 345
gi 121534334 255 EPGRFICGTAVNLITRVIGVQQRng--------------qqWYFLDEGLYGTFSGiiFDHWDFELETFKs----ePKIPA 316
gi 117621391 253 EPGRFISAPAMTSVSSVMGKAHRgd--------------kiWYYLDDGLYGSYNGqlYDHVTYPVSTPLar---gELHNS 315
gi 13124043  255 EPGRYMCGTAVNLVTSVIGTKTRge--------------qpWYILDEGIYGCFSGimYDHWTYPLHCFGk----gNKKPS 316
gi 32475383  279 EPGRGLCTESVTLITRVIGKSRRwe--------------lpWFFLDDGIYGSFSGkiFDHTDFPLLVENdg--srETVPC 342
2PLJ_A       290 EPGRFICAPAVTSVASVMGQAEReg--------------qiWYYLDDGIYGSFSGlmFDDARYPLTTIKqg---gELIPS 352
                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|....*....
Feature 1              #                               #                    
2OO0_A       364 SIWGPTCDGLDRIVEr--CDLPE-MHVGDWMLFENMGAYTVAAASt-FNGFQRPTIYYV 418
gi 58038915  321 VLAGPSCDGVDIMYEknrIPLPDsLECGDRVEILATGAYVSTYASvgFNGFPPLTEYYI 379
gi 162147147 383 AIAGPTCDGADIMYEkapYALPLdLACGDRIELLSTGAYVSTYCStsFNGFAPLTEHYI 441
gi 148261170 318 VLAGPSCDGVDVMYRetpCPLPAsLAAGDRVLIHDTGAYVTSYASqgFNGFLPPEEHYL 376
gi 126740499 346 VVAGPSCDSVDVLYEkqpYQLPTgLKAGDRVVIHSCGAYTSTYASigFNGFPPLDVIVI 404
gi 121534334 317 TFAGPSCDSLDVLFRd--KLTPP-LAMDDLILVPSCGSYTSASATv-FNGFAKAPIIVW 371
gi 117621391 316 VLSGPTCDSVDVIRDg--IMLPD-LAIGELVVGRVMGAYTWASASt-FNFFPKASILIL 370
gi 13124043  317 TFGGPSCDGIDVLYRd--FMAPE-LKIGDKVLVTEMGSYTSVSATr-FNGFYLAPTIIF 371
gi 32475383  343 VVAGPTCDSTDIVSRd--QWLPD-LEVGELVLVPSMGAYAAASASp-FNGLPMANSVAI 397
2PLJ_A       353 VLSGPTCDSVDVIAEn--ILLPK-LNNGDLVIGRTMGAYTSATATd-FNFFKRAQTIAL 407

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