Conserved Protein Domain Family
PLPDE_III_DSD_D-TA_like

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cd07376: PLPDE_III_DSD_D-TA_like 
Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase
This family includes eukaryotic D-serine dehydratases (DSD), cryptic DSDs from bacteria, D-threonine aldolases (D-TA), low specificity D-TAs, and similar uncharacterized proteins. DSD catalyzes the dehydration of D-serine to aminoacrylate, which is rapidly hydrolyzed to pyruvate and ammonia. D-TA reversibly catalyzes the aldol cleavage of D-threonine into glycine and acetaldehyde, and the synthesis of D-threonine from glycine and acetaldehyde. Members of this family are fold type III PLP-dependent enzymes, similar to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM barrel domain and a C-terminal beta-sandwich domain. AR exists 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. Based on similarity to AR, it is possible members of this family also form dimers in solution.
Statistics
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PSSM-Id: 143511
View PSSM: cd07376
Aligned: 8 rows
Threshold Bit Score: 252.385
Threshold Setting Gi: 145596535
Created: 14-Apr-2009
Updated: 17-Jan-2013
Structure
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Aligned Rows:
 
Feature 1:active site [active site]
Evidence:
  • Comment:Based on the binding of the PLP cofactor and substrate analogs to other members of the superfamily.
  • Comment:The active site is composed of residues from both subunits of the dimer. There are two active sites in the functional dimer.

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                              # #                    #                     #            
gi 163929821  21 TARRNAERMRErcralGVRLRPHVKTHktLEGGLLATGgt-rrGIAVSTLAEARFFADGGf-dDILLAYPVp--tARLEE 96
gi 171909953  27 RIEENLRRMIAmv-gdVQRLRPHMKTHkmPDVIKLHLAlg-itKFKCATIAEAEMTAEAGa-kDILLAYPLv--gPNIAR 101
gi 28869967   42 ALEHNIRWMQQfvtdsGAELAPHGKTSmvPALFRRQLDag-awGMTLATAIQTQTAYAHGv-kRVLMANQLvg-aPNMAV 118
gi 21325381   51 RLTANISRMAAhagahEIALRPHVKTHkiIEIAQMQVDag-arGITCATIGEAEIFAGAGf-tDIFIAYPLyltdHAVQR 128
gi 120553036  66 GLDYNLSALNShl-ngEYHYRIVVKSLpsLPLLQRIMAatgsnRLMVFHQPFLNTVAEALpqaDVLMGKPLp--vAAVDR 142
gi 145596535  55 AFDANAAALAEra--rGKPIRLASKSVrcRTLISRALAapgwaGVLAFTLAEALWLVRCGvtdDAVVAYPStd-rAALAE 131
gi 115421763  23 RMEANIEYMKArmrrlGVTLRPHLKTPksVEVARRAMQtp-qgPAAVSTLQEAEQFARAGv-rDILYAVGLs--pAKIDR 98
gi 91790642   27 AFERNLHRMADalkgsQVRLRPHAKSHkcPEIALRQIAlg-avGVCCQKVSEAAVFVAAGv-rDVLITNEVvg-pVKIRH 103
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                       #                 #              
gi 163929821  97 CAGLarr-------ldaFHVLLDRpEALASLRqrplg-hgkrWLVWLKLDc-----------gNGRAGVrptdpAALELA 157
gi 171909953 102 FLKLkrqy-----pqtrFCAVADDaDAARALSaaagk-egvtVEVMLEVNc-----------gMARTGIapgegAIQLYQ 164
gi 28869967  119 IASLladp------mfeFHCMVDHpDNVAALGeffaa-hglrLNVMIEYGv-----------pGGRCGCr---sEAEVLA 177
gi 21325381  129 LNAIpg----------eISIGVDSvEMAQATAglr-----edIKALIEVDs-----------gHRRSGVt---aTASELS 179
gi 120553036 143 FYRQltsstsgfrpeqqLQWLVDSrQRLEAYEgfars-qqrrLRINLEIDi-----------gLHRGGFtdtgeLARALT 210
gi 145596535 132 LAGDptl-------aaaVTLMIDDpAQLDLVDavrapghrpeLRVCLDLDaswrplggrlhlgVRRSPVh---dPRAAGA 201
gi 115421763  99 VLALraq-------gvnLTVVVDSvEAAQALAsrsra-agapIPALIEIDa-----------dGHRAGVrp--eQQALLC 157
gi 91790642  104 LMELart--------ahLGVLVDHaSQVPALAaaaqa-hsvtLDVYVEVDv-----------gAHRCGVap-gaEAAQLA 162
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                          #                                                             
gi 163929821 158 QAiandapEEVTLVGVYAHCGntygcsgad----------------tiqaiarttTNAVLSFVAALrqa----------- 210
gi 171909953 165 LLat---lPNVQVAGIHAYDGhihdhdlaa-----------------rtsgvevaYQPVEALRDRLlal----------- 213
gi 28869967  178 LAdavqaqPALALSGIEGYEGvi------------------------------hgDQAIAGIKAFAaslvslavnlqdkg 227
gi 21325381  180 QIre---aLGSRYAGVFTFPGhsygpg----------------------ngeqaaADELQALNNSVqr------------ 222
gi 120553036 211 TIdh---sPWLSFSGFMGYEPhimkapg---------------------paawlrDRAMARYRDYVstaeqh-------l 259
gi 145596535 202 LAatvaarSGFRLVGLMAYEAqiagmgdappgrallgaairlvqrgsyrellarrSAAVAAVREHAe------------- 268
gi 115421763 158 AIgralheGGAELRGVMTHAGesysspdv------------------vairdmaeRERSAAVRAAAvlre---------- 209
gi 91790642  163 RLvv--asPPLRFAGLQCYHGpaqhlrtp-------------------reraqaiGDAVRRVRQTLaaiea--------- 212
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                    ##                       ####                                       
gi 163929821 211 --gvpCPQASIGSTPSCshpip-------emsqlTELHPGNYIFYDLQQTQlg----scQPQDVAIRvl-tRVIGHYAhr 276
gi 171909953 214 --glsVPHYVVSGTPTFgiha---------rrgsYECSPGTCVVWDWGYGTkhp---dlDFLHAALVv--tRVISKPAp- 276
gi 28869967  228 afaldRPIVTASGSAWYdliaeafdaqavrdrflSVLRPGSYVVHDHGIYKd-------AQCCVLDRraelSEALRPAle 300
gi 21325381  223 ---laGGLTSGGSSPSAqft-----------daiDEMRPGVYVFNDSQQITsg----acTEKQVAMTvl-sTVVSRNVsd 283
gi 120553036 260 grsltDLTLNTGGSTTYqlyrgl-----sgelpvNELSAGSGLVMPTDFDLpt----laEHRPAAFIa--tPVLKLLEtt 328
gi 145596535 269 -----LEFVNGGGTGSLaatsa--------dpavTEVAAGSGLYGPTLFDTyr----awRPTPAAFFa--cAVARRPApg 329
gi 115421763 210 -qglpCPVVSVGSTPTAmfaen--------legvTEVRAGVYVFFDLFMAGlg----vcKQDDIALSvl-tTVIGHQPek 275
gi 91790642  213 -cgiaVKCVTGAGTGTFlherd--------sgvyNELQAGSYVFMDRDYGDnqrgegdvAFEHALFIk--tTVMSRPTa- 280
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                      #                                                                 
gi 163929821 277 ------gQLLVDCGWAALslhgagagq----gpqgcaaiDGHPELRLVgltqehglle---haggqmdfgrFPVGSVLAl 343
gi 171909953 277 ------eRLTLDLGHKAIaaenph----------prvylLNLPDAKAVmhseehla-------vetplagdFPVGSVVYg 333
gi 28869967  301 ------vWAHVQSMPEPGfaviamgk-----rdvaydagLPNPLLRYTpgvssa------------pgddvSACKVTAVm 357
gi 21325381  284 ------rRIILDAGSKILstdkpaw-------idgngfvLGNPEARISalsehhati-----fwpdkvllpVIGEQLNIv 345
gi 120553036 329 ripgapgLGRLQALWNPNrartaf---------iyggnwPATPVSPAGltdnpvygrssnqemlnfadgldLAEGDRVFl 399
gi 145596535 330 ------yATVLGGGWIASgpae--------------rsrLPRPVLPADlrlvgaegagevqtpltgratdtLQIGDRVWf 389
gi 115421763 276 ------aWILVDAGWMAMsrdrgtanqavdqyyglvcdvAGRPLPGLVlkqtnqeqgiitlrpgatgtlpdLPIGTRLRi 349
gi 91790642  281 ------eRAVVDSGLKASsidsg------------lpvvWQRPELRYAkaadehgv-------iltpdaaaLSLGDALMl 335
                        410       420       430
                 ....*....|....*....|....*....|....
Feature 1                                          
gi 163929821 344 iPYHACATAAMHPVYYvheegk--vvalwHPVRG 375
gi 171909953 334 vPWHICPTVALHSHAFvvrgg---radgtWKVAG 364
gi 28869967  358 -DQHAFMTVAADCELKvgdii---sfgtsHPCLT 387
gi 21325381  346 -PNHACNVINLVDEVYvread---gtfrtWKVVA 375
gi 120553036 400 -RPHQSESVFLQFGDLaifdpargaithrWPVFR 432
gi 145596535 390 rHAKAGELAEHVNELHlveaetvgtaaatYRGEG 423
gi 115421763 350 lPNHACATGAQHDAYQvlrga---dvaavWPRFR 380
gi 91790642  336 vPGHCDPTVNLYDELVcvrgq---rvealWPVAA 366

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