Conserved Protein Domain Family
GDC-P

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cd00613: GDC-P 
Click on image for an interactive view with Cn3D
Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1.2.10 (GDC) also annotated as glycine cleavage system or glycine synthase. GDC consists of four proteins P, H, L and T. The reaction catalysed by this protein is: Glycine + lipoylprotein <=> S-aminomethyldihydrolipoylprotein + CO2. Alpha-beta-type dimers associate to form an alpha(2)beta(2) tetramer, where the alpha- and beta-subunits are structurally similar and appear to have arisen by gene duplication and subsequent divergence with a loss of one active site. The members of this CD are widely dispersed among all three forms of cellular life.
Statistics
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PSSM-Id: 99737
View PSSM: cd00613
Aligned: 42 rows
Threshold Bit Score: 404.691
Threshold Setting Gi: 15790564
Created: 7-Mar-2002
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site include 1 residue -Click on image for an interactive view with Cn3D
Feature 1:catalytic residue [active site]
Evidence:
  • Comment:cofactor PLP is bound to the active-site pocket and forms an internal aldimine bond (Schiff base linkage) with a catalytic Lys residue from the beta subunit
  • Structure:1WYU_B; Glycine cleavage system P-protein bound to pyridoxamine phosphate
    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                                                                                        
1WYU_B        47 ELTLVRHYTGLSRRQvgvdttfyplGSCTMKYNPKLHEEAARlf----aDLHPYQDPRtaQGALRLMWELGEYLKALTGM 122
gi 17548012   83 EEAALAKLRGIAGQNrvvr---sliGQGYYGTHTPGVILRNIlenpawyTAYTPYQPEisQGRLEAMLNFQQMVMDLTAM 159
gi 1346120   120 EQEMLQHLEKIANKNhykv--knfiGKGYYGTILPPVIQRNLlespewyTSYTPYQPEisQGRLEALLNFQTVVSDLTGL 197
gi 1169885   111 ESEFTTLANNVANQNklik---sfiGMGYYNVKLPAAIQRNVlenpewyTQYTPYQAEisQGRLESMMNYQTMIADLTGL 187
gi 24645648   87 EHELIRRIRDISLKNqlwr---syiGMGYHNCHVPHTIIRNMfenpgwtTQYTPYQPEiaQGRLESLLNYQTLVTDLTGL 163
gi 17535605   80 EYKMLKELEAIAAQNkiyr---syiGMGYYDTIVPAVISRNIlqnigwiSQYTPYQAEisQGRLESLLNFQTMIAEMTGL 156
gi 417041     64 EYAALAELKAIASRNkrft---syiGMGYTAVQLPPVILRNMlenpgwyTAYTPYQPEvsQGRLEALLNFQQVTLDLTGL 140
gi 15806810   64 EAQALAELKAVAQKNkvfr---syiGMGYAGTDVPPVILRNMlenpgwyTAYTPYQAEisQGRLEMLLNFQQTVQDMTGM 140
gi 24213060   74 EHKILQNLKGIASQNqvfr---syiGAGYHSCIIPGVIQRNIlenpgwyTAYTPYQAEisQGRLEALLNFQTMIIDLTGL 150
gi 1653603    83 EYGAIAQLKSIASKNqvfr---syiGMGYYDTITPPVIQRNIlenpgwyTAYTPYQAEiaQGRLEALLNFQTMVMDLTGL 159
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
1WYU_B       123 D--AITLEPAAGAHGELTGILIIRayhedrgegrtrRVVLVPDSAHGSNPATASMAg----YQVREIpsgpegevdleal 196
gi 17548012  160 DiaNASMLDEATAAAEAMTLLQRVgkh-------psNVFFVADDVLPQTLDVVRTRaepigVQVVTGpaad--------- 223
gi 1346120   198 PvaNASLLDEGTAAGEAMLLSFNIsrk-------kkLKYVIDKKLHQQTKSVLHTRakpfnIEIIEVdcsdikka----v 266
gi 1169885   188 SisNASLLDEGTAAGEAMVMLMANdkk-------krKTFLVDKNIYPNTLSVLRTRasgfgIKIELDnitpel------- 253
gi 24645648  164 DvaNASLLDEGTAAAEAMCLATRHnk---------rKKLYLSNRVHPQTLSVVKTRtealeLEIVVGpieqa-------- 226
gi 17535605  157 PttNASLLDEATASAEAVALAARTtk---------rNKIVVDSFCHPQNLDVIRTRsgplgIDIEVSdsieg-------- 219
gi 417041    141 DmaSASLLDEATAAAEAMAMAKRVskl------knaNRFFVASDVHPQTLDVVRTRaetfgFEVIVDdaqkv-------- 206
gi 15806810  141 PvsNASLLDEATAAAEAMTLAKRQskn------kgsNVFFVADNVHPQTMDVVKTRaeyfgFEVQTGsada--------- 205
gi 24213060  151 EisNASLLDEGTAAAEAMFLAYSVrkn------etaKKFFVSELCHPQTIDVVVTRanplgIEVQIGnhesi-------- 216
gi 1653603   160 EiaNASLLDEGTAAAEAMALSYGVsks-------kaNAFFVAQDCHPQTIEVIKTRanplgIEVIVGdhhtf-------- 224
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                #       
1WYU_B       197 krelgpHVAALMLTNPNTLGLFErri---leISRLCKEAGVQLYYDGANLnaimgwARPGDMGFDVVHLNLHKTFtVPHG 273
gi 17548012  224 --aakhNAFGVLLQYPGTGGALLgglstyqaLTDAVHAAGGLVVAAADLLalt-llAAPGEWGADVVIGNTQRFG-VPFG 299
gi 1346120   267 dvlknpDVSGCLVQYPATDGSILppds-mkqLSDALHSHKSLLSVASDLMalt-llKPPAHYGADIVLGSSQRFG-VPMG 343
gi 1169885   254 itksakHVFGIFVQYPAADGSIFdy----ghLAATARSFNMHVVAATDLLalt-ilKSPGEWGADVAVGSTQRFG-LPMG 327
gi 24645648  227 -dlpsrELAGILLQYPDTYGDVKdf----edIAALAKKNGTLVVVATDLLslt-llRPPAEFGADIAVGTSQRLG-VPLG 299
gi 17535605  220 -yafddKVAAVVVQYPNTEGRIHqf----deLIESAHKNKSLVIMVCDLLslt-ilRSPGDLGADIAVGSAQRFG-VPLG 292
gi 417041    207 --ldhqDVFGVLLQQVGTTGEIHdy----taLISELKSRKIVVSVAADIMalv-llTAPGKQGADIVFGSAQRFG-VPMG 278
gi 15806810  206 ---ipeGAFGALVQYPGTHGEVLnl----apIAEKAHTQGAALIVATDLLaca-llTPPGEQGADIVVGSAQRFG-VPMG 276
gi 24213060  217 --elneDFFGVLLQYPATDGKVIdy----tsFIQRSHNVGAISTVAADLLalt-llKSPGEMGADIAVGSSQRFG-LPLG 288
gi 1653603   225 --sfstSIFGALLQYPATDGAVYdy----rsFIDKAHQHQALVTLAADPLslt-llTPPGELGADIAVGSTQRFG-IPLG 296
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
1WYU_B       274 GGGPGSGPVGVKa-----HLAPYLPVPLVERGe-----eGFYLDfdrpksi-----grvrsfyGNFLALVRAWAYIRTLG 338
gi 17548012  300 FGGPHAGYMAVRd-----AFKRSMPGRLVGVTvdaqgnpAYRLAlqtreqhirrekatsnictAQVLLGVMASMYAVYHG 374
gi 1346120   344 YGGPHAAFFAVId-----KLNRKIPGRIVGISkdrlgktALRLAlqtreqhikrdkatsnictAQALLANVASSYCVYHG 418
gi 1169885   328 YGGPHAGFFACSe-----EFKRKIPGRLIGLSkdrlenpAYRLAlqtreqhirrekatsnictAQALLANMSAFYAIYHG 402
gi 24645648  300 YGGPHAGFFACKq-----SLVRLMPGRMIGVTrdmdgndAYRLAlqtreqhirrdkatsnictAQALLANMSAMYAIYHG 374
gi 17535605  293 YGGPHAGFMAVAkhdaknALGRNIPGRIIGVTkdangnrALRLAlqtreqhirrdkatsnictAQALLANMSAMYAVYHG 372
gi 417041    279 YGGPHAAFFAAKd-----EYKRSMPGRIIGVSkdaagntALRMAmqtreqhirrekansnictSQVLLANIASLYAVYHG 353
gi 15806810  277 FGGPHAAFLACQk-----GFERSMPGRVIGVSkdvrgntALRMAmqtreqhirrekatsnictAQALLANMAAAYAVWHG 351
gi 24213060  289 FGGPHAGYFATKd-----EFKRSMPGRLIGVSkdsqgnsGLRLSlqtreqhirrdkatsnictAQVLLAVISSMYAIYHG 363
gi 1653603   297 YGGPHAAYFATKa-----EYQRKMPGRIVGVSkdahgnpALRLAlqtreqhirrdkatsnictAQVLLAVMASMYGVYHG 371
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
1WYU_B       339 LeGLKKAAALAVLNARYLKELLKEkgyrv-pydgPSMHEFVAQppe-gfrALDLAKGLLELGFHpptvyfplivkeALMV 416
gi 17548012  375 PqGLKRIAQRVHRLTATLAAGLRQigyt--leagAFFDTLTVAtgp--rtANLHIAAQAHGFNLrqi------ddgRLGV 444
gi 1346120   419 PkGLQNISRRIFSLTSILANAIENdscphelinkTWFDTLTIKlgn-gisSEQLLDKALKEFNInlfa----vdttTISL 493
gi 1169885   403 PnGLQEIANRIYASTSFLKSALESsgyki-vnksHFFDTLTIEve---saDKVLAKALDHGYNLrkv------ddsHVGL 472
gi 24645648  375 PeGLKAMANRIHHFTLTLQTGVLGaghe--vinkNFFDTLHIRlgggqslEDLKERAEHKRINLryl------eddTVGV 446
gi 17535605  373 PqRLTEIARGVHKSTAYLAYHLRNaghe--ivhkDYFDTLKIRlkdkaalEETKKRAEEMKMNFryy------edgDIGV 444
gi 417041    354 PvGLKRIANRIHRLTDILAAGLQQkglk--lrhaHYFDTLCVEva---dkAGVLTRAEAAEINLrsd------ilnAVGI 422
gi 15806810  352 PeGIKTIAERVHRLTGILAKALQDagik---aneTFFDTLTFEg-----qDDLGARAEAKGINFrld-------ggKVGI 416
gi 24213060  364 PeGLKNIATRIYKFTSIFANVLKNagfs--itneFFFDTITIQaga--kvQEILNRAYSKKINFrey------kdgKIGI 433
gi 1653603   372 StGLKNIALRIHQLTVLLAIGLKRlnys--lnndYFFDTLRVGvge-qsaPAILKAAEGRGINLrpl------vpgEVGI 442
                        410
                 ....*....|....*...
Feature 1                          
1WYU_B       417 EPTETeAKETLEAFAEAM 434
gi 17548012  445 SLDETvTRAEVVALWEIF 462
gi 1346120   494 ALDETtTKADVENLLKVF 511
gi 1169885   473 SLDETvCDKDIQALFSIF 490
gi 24645648  447 ALDETvSVADVDDLLWVF 464
gi 17535605  445 SLDETvKSEDLMDIIYTL 462
gi 417041    423 TLDETtTRENVMQLFNVL 440
gi 15806810  417 SLDETvTPQDLADIIEVV 434
gi 24213060  434 TLDETvNLEDLKDLLEIF 451
gi 1653603   443 SLDETvTVQDLLDLWQVF 460

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