1WYU,1WYU


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:
Feature 1                                                                                      
1WYU_B      47 ELTLVRHYTGLSRRQvgvdttfyplGSCTMKYNPKLHEEAARlf----aDLHPYQDPRtaQGALRLMWELGEYLKALTGM 122  Thermus thermoph...
NP_521414   83 EEAALAKLRGIAGQNrvvr---sliGQGYYGTHTPGVILRNIlenpawyTAYTPYQPEisQGRLEAMLNFQQMVMDLTAM 159  Ralstonia solana...
P49095     120 EQEMLQHLEKIANKNhykv--knfiGKGYYGTILPPVIQRNLlespewyTSYTPYQPEisQGRLEALLNFQTVVSDLTGL 197  baker's yeast
Q09785     111 ESEFTTLANNVANQNklik---sfiGMGYYNVKLPAAIQRNVlenpewyTQYTPYQAEisQGRLESMMNYQTMIADLTGL 187  fission yeast
NP_649989   87 EHELIRRIRDISLKNqlwr---syiGMGYHNCHVPHTIIRNMfenpgwtTQYTPYQPEiaQGRLESLLNYQTLVTDLTGL 163  fruit fly
NP_495209   80 EYKMLKELEAIAAQNkiyr---syiGMGYYDTIVPAVISRNIlqnigwiSQYTPYQAEisQGRLESLLNFQTMIAEMTGL 156  Caenorhabditis e...
P33195      64 EYAALAELKAIASRNkrft---syiGMGYTAVQLPPVILRNMlenpgwyTAYTPYQPEvsQGRLEALLNFQQVTLDLTGL 140  Escherichia coli...
NP_295532   64 EAQALAELKAVAQKNkvfr---syiGMGYAGTDVPPVILRNMlenpgwyTAYTPYQAEisQGRLEMLLNFQQTVQDMTGM 140  Deinococcus radi...
NP_710541   74 EHKILQNLKGIASQNqvfr---syiGAGYHSCIIPGVIQRNIlenpgwyTAYTPYQAEisQGRLEALLNFQTMIIDLTGL 150  Leptospira inter...
BAA18516    83 EYGAIAQLKSIASKNqvfr---syiGMGYYDTITPPVIQRNIlenpgwyTAYTPYQAEiaQGRLEALLNFQTMVMDLTGL 159  Synechocystis sp...
Feature 1                                                                                      
1WYU_B     123 D--AITLEPAAGAHGELTGILIIRayhedrgegrtrRVVLVPDSAHGSNPATASMAg----YQVREIpsgpegevdleal 196  Thermus thermoph...
NP_521414  160 DiaNASMLDEATAAAEAMTLLQRVgkh-------psNVFFVADDVLPQTLDVVRTRaepigVQVVTGpaad--------- 223  Ralstonia solana...
P49095     198 PvaNASLLDEGTAAGEAMLLSFNIsrk-------kkLKYVIDKKLHQQTKSVLHTRakpfnIEIIEVdcsdikka----v 266  baker's yeast
Q09785     188 SisNASLLDEGTAAGEAMVMLMANdkk-------krKTFLVDKNIYPNTLSVLRTRasgfgIKIELDnitpel------- 253  fission yeast
NP_649989  164 DvaNASLLDEGTAAAEAMCLATRHnk---------rKKLYLSNRVHPQTLSVVKTRtealeLEIVVGpieqa-------- 226  fruit fly
NP_495209  157 PttNASLLDEATASAEAVALAARTtk---------rNKIVVDSFCHPQNLDVIRTRsgplgIDIEVSdsieg-------- 219  Caenorhabditis e...
P33195     141 DmaSASLLDEATAAAEAMAMAKRVskl------knaNRFFVASDVHPQTLDVVRTRaetfgFEVIVDdaqkv-------- 206  Escherichia coli...
NP_295532  141 PvsNASLLDEATAAAEAMTLAKRQskn------kgsNVFFVADNVHPQTMDVVKTRaeyfgFEVQTGsada--------- 205  Deinococcus radi...
NP_710541  151 EisNASLLDEGTAAAEAMFLAYSVrkn------etaKKFFVSELCHPQTIDVVVTRanplgIEVQIGnhesi-------- 216  Leptospira inter...
BAA18516   160 EiaNASLLDEGTAAAEAMALSYGVsks-------kaNAFFVAQDCHPQTIEVIKTRanplgIEVIVGdhhtf-------- 224  Synechocystis sp...
Feature 1                                                                              #       
1WYU_B     197 krelgpHVAALMLTNPNTLGLFErri---leISRLCKEAGVQLYYDGANLnaimgwARPGDMGFDVVHLNLHKTFtVPHG 273  Thermus thermoph...
NP_521414  224 --aakhNAFGVLLQYPGTGGALLgglstyqaLTDAVHAAGGLVVAAADLLalt-llAAPGEWGADVVIGNTQRFG-VPFG 299  Ralstonia solana...
P49095     267 dvlknpDVSGCLVQYPATDGSILppds-mkqLSDALHSHKSLLSVASDLMalt-llKPPAHYGADIVLGSSQRFG-VPMG 343  baker's yeast
Q09785     254 itksakHVFGIFVQYPAADGSIFdy----ghLAATARSFNMHVVAATDLLalt-ilKSPGEWGADVAVGSTQRFG-LPMG 327  fission yeast
NP_649989  227 -dlpsrELAGILLQYPDTYGDVKdf----edIAALAKKNGTLVVVATDLLslt-llRPPAEFGADIAVGTSQRLG-VPLG 299  fruit fly
NP_495209  220 -yafddKVAAVVVQYPNTEGRIHqf----deLIESAHKNKSLVIMVCDLLslt-ilRSPGDLGADIAVGSAQRFG-VPLG 292  Caenorhabditis e...
P33195     207 --ldhqDVFGVLLQQVGTTGEIHdy----taLISELKSRKIVVSVAADIMalv-llTAPGKQGADIVFGSAQRFG-VPMG 278  Escherichia coli...
NP_295532  206 ---ipeGAFGALVQYPGTHGEVLnl----apIAEKAHTQGAALIVATDLLaca-llTPPGEQGADIVVGSAQRFG-VPMG 276  Deinococcus radi...
NP_710541  217 --elneDFFGVLLQYPATDGKVIdy----tsFIQRSHNVGAISTVAADLLalt-llKSPGEMGADIAVGSSQRFG-LPLG 288  Leptospira inter...
BAA18516   225 --sfstSIFGALLQYPATDGAVYdy----rsFIDKAHQHQALVTLAADPLslt-llTPPGELGADIAVGSTQRFG-IPLG 296  Synechocystis sp...
Feature 1                                                                                      
1WYU_B     274 GGGPGSGPVGVKa-----HLAPYLPVPLVERGe-----eGFYLDfdrpksi-----grvrsfyGNFLALVRAWAYIRTLG 338  Thermus thermoph...
NP_521414  300 FGGPHAGYMAVRd-----AFKRSMPGRLVGVTvdaqgnpAYRLAlqtreqhirrekatsnictAQVLLGVMASMYAVYHG 374  Ralstonia solana...
P49095     344 YGGPHAAFFAVId-----KLNRKIPGRIVGISkdrlgktALRLAlqtreqhikrdkatsnictAQALLANVASSYCVYHG 418  baker's yeast
Q09785     328 YGGPHAGFFACSe-----EFKRKIPGRLIGLSkdrlenpAYRLAlqtreqhirrekatsnictAQALLANMSAFYAIYHG 402  fission yeast
NP_649989  300 YGGPHAGFFACKq-----SLVRLMPGRMIGVTrdmdgndAYRLAlqtreqhirrdkatsnictAQALLANMSAMYAIYHG 374  fruit fly
NP_495209  293 YGGPHAGFMAVAkhdaknALGRNIPGRIIGVTkdangnrALRLAlqtreqhirrdkatsnictAQALLANMSAMYAVYHG 372  Caenorhabditis e...
P33195     279 YGGPHAAFFAAKd-----EYKRSMPGRIIGVSkdaagntALRMAmqtreqhirrekansnictSQVLLANIASLYAVYHG 353  Escherichia coli...
NP_295532  277 FGGPHAAFLACQk-----GFERSMPGRVIGVSkdvrgntALRMAmqtreqhirrekatsnictAQALLANMAAAYAVWHG 351  Deinococcus radi...
NP_710541  289 FGGPHAGYFATKd-----EFKRSMPGRLIGVSkdsqgnsGLRLSlqtreqhirrdkatsnictAQVLLAVISSMYAIYHG 363  Leptospira inter...
BAA18516   297 YGGPHAAYFATKa-----EYQRKMPGRIVGVSkdahgnpALRLAlqtreqhirrdkatsnictAQVLLAVMASMYGVYHG 371  Synechocystis sp...
Feature 1                                                                                      
1WYU_B     339 LeGLKKAAALAVLNARYLKELLKEkgyrv-pydgPSMHEFVAQppe-gfrALDLAKGLLELGFHpptvyfplivkeALMV 416  Thermus thermoph...
NP_521414  375 PqGLKRIAQRVHRLTATLAAGLRQigyt--leagAFFDTLTVAtgp--rtANLHIAAQAHGFNLrqi------ddgRLGV 444  Ralstonia solana...
P49095     419 PkGLQNISRRIFSLTSILANAIENdscphelinkTWFDTLTIKlgn-gisSEQLLDKALKEFNInlfa----vdttTISL 493  baker's yeast
Q09785     403 PnGLQEIANRIYASTSFLKSALESsgyki-vnksHFFDTLTIEve---saDKVLAKALDHGYNLrkv------ddsHVGL 472  fission yeast
NP_649989  375 PeGLKAMANRIHHFTLTLQTGVLGaghe--vinkNFFDTLHIRlgggqslEDLKERAEHKRINLryl------eddTVGV 446  fruit fly
NP_495209  373 PqRLTEIARGVHKSTAYLAYHLRNaghe--ivhkDYFDTLKIRlkdkaalEETKKRAEEMKMNFryy------edgDIGV 444  Caenorhabditis e...
P33195     354 PvGLKRIANRIHRLTDILAAGLQQkglk--lrhaHYFDTLCVEva---dkAGVLTRAEAAEINLrsd------ilnAVGI 422  Escherichia coli...
NP_295532  352 PeGIKTIAERVHRLTGILAKALQDagik---aneTFFDTLTFEg-----qDDLGARAEAKGINFrld-------ggKVGI 416  Deinococcus radi...
NP_710541  364 PeGLKNIATRIYKFTSIFANVLKNagfs--itneFFFDTITIQaga--kvQEILNRAYSKKINFrey------kdgKIGI 433  Leptospira inter...
BAA18516   372 StGLKNIALRIHQLTVLLAIGLKRlnys--lnndYFFDTLRVGvge-qsaPAILKAAEGRGINLrpl------vpgEVGI 442  Synechocystis sp...
Feature 1                        
1WYU_B     417 EPTETeAKETLEAFAEAM 434  Thermus thermophilus
NP_521414  445 SLDETvTRAEVVALWEIF 462  Ralstonia solanacearum GMI1000
P49095     494 ALDETtTKADVENLLKVF 511  baker's yeast
Q09785     473 SLDETvCDKDIQALFSIF 490  fission yeast
NP_649989  447 ALDETvSVADVDDLLWVF 464  fruit fly
NP_495209  445 SLDETvKSEDLMDIIYTL 462  Caenorhabditis elegans
P33195     423 TLDETtTRENVMQLFNVL 440  Escherichia coli K12
NP_295532  417 SLDETvTPQDLADIIEVV 434  Deinococcus radiodurans R1
NP_710541  434 TLDETvNLEDLKDLLEIF 451  Leptospira interrogans serovar lai str. 56601
BAA18516   443 SLDETvTVQDLLDLWQVF 460  Synechocystis sp. PCC 6803

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