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Conserved domains on  [gi|550544195|ref|NP_001272379|]
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pyridoxal-dependent decarboxylase domain-containing protein 1 isoform 7 [Homo sapiens]

Protein Classification

PLP-dependent aminotransferase family protein( domain architecture ID 139552)

PLP-dependent aminotransferase family protein may combine pyridoxal phosphate with an alpha-amino acid to form a Schiff base or aldimine intermediate, which then acts as the substrate in a reaction such as a transamination, racemization, or decarboxylation

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
AAT_I super family cl18945
Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP) ...
172-371 4.21e-19

Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the substrate in four kinds of reactions (1) transamination (movement of amino groups), (2) racemization (redistribution of enantiomers), (3) decarboxylation (removing COOH groups), and (4) various side-chain reactions depending on the enzyme involved. Pyridoxal phosphate (PLP) dependent enzymes were previously classified into alpha, beta and gamma classes, based on the chemical characteristics (carbon atom involved) of the reaction they catalyzed. The availability of several structures allowed a comprehensive analysis of the evolutionary classification of PLP dependent enzymes, and it was found that the functional classification did not always agree with the evolutionary history of these enzymes. Structure and sequence analysis has revealed that the PLP dependent enzymes can be classified into four major groups of different evolutionary origin: aspartate aminotransferase superfamily (fold type I), tryptophan synthase beta superfamily (fold type II), alanine racemase superfamily (fold type III), and D-amino acid superfamily (fold type IV) and Glycogen phophorylase family (fold type V).


The actual alignment was detected with superfamily member cd06450:

Pssm-ID: 450240 [Multi-domain]  Cd Length: 345  Bit Score: 88.03  E-value: 4.21e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 172 KKPVIYLSAAARPGL---GQYLCNQ------------DVAFLEKLIKDDIERGRLPLLLVANAGTAAVGHTDKIGRLKEL 236
Cdd:cd06450   94 DKLVIVCSDQAHVSVekaAAYLDVKvrlvpvdedgrmDPEALEAAIDEDKAEGLNPIMVVATAGTTDTGAIDPLEEIADL 173
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 237 CEQYGIWLHVEGvnlatlALGyvsSSVLaaakcdsMTMTPGPWL-GLPAVPAVT------LYKHDDPALTLVagltsnkp 309
Cdd:cd06450  174 AEKYDLWLHVDA------AYG---GFLL-------PFPEPRHLDfGIERVDSISvdphkyGLVPLGCSAVLV-------- 229
                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 550544195 310 tdklRALPLWLSLQYLGLDGFVERIKHACQLSQRLQESLKKVNYIKILVEDELssPVVVFRF 371
Cdd:cd06450  230 ----RALKLWATLRRFGRDGYGEHIDRIVDLAKYLAELIRADPGFELLGEPNL--SLVCFRL 285
 
Name Accession Description Interval E-value
DOPA_deC_like cd06450
DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent ...
172-371 4.21e-19

DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and glutamate decarboxylase (GDC). DDC is active as a dimer and catalyzes the decarboxylation of tyrosine. GDC catalyzes the decarboxylation of glutamate and HDC catalyzes the decarboxylation of histidine.


Pssm-ID: 99743 [Multi-domain]  Cd Length: 345  Bit Score: 88.03  E-value: 4.21e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 172 KKPVIYLSAAARPGL---GQYLCNQ------------DVAFLEKLIKDDIERGRLPLLLVANAGTAAVGHTDKIGRLKEL 236
Cdd:cd06450   94 DKLVIVCSDQAHVSVekaAAYLDVKvrlvpvdedgrmDPEALEAAIDEDKAEGLNPIMVVATAGTTDTGAIDPLEEIADL 173
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 237 CEQYGIWLHVEGvnlatlALGyvsSSVLaaakcdsMTMTPGPWL-GLPAVPAVT------LYKHDDPALTLVagltsnkp 309
Cdd:cd06450  174 AEKYDLWLHVDA------AYG---GFLL-------PFPEPRHLDfGIERVDSISvdphkyGLVPLGCSAVLV-------- 229
                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 550544195 310 tdklRALPLWLSLQYLGLDGFVERIKHACQLSQRLQESLKKVNYIKILVEDELssPVVVFRF 371
Cdd:cd06450  230 ----RALKLWATLRRFGRDGYGEHIDRIVDLAKYLAELIRADPGFELLGEPNL--SLVCFRL 285
GadA COG0076
Glutamate or tyrosine decarboxylase or a related PLP-dependent protein [Amino acid transport ...
164-371 1.11e-15

Glutamate or tyrosine decarboxylase or a related PLP-dependent protein [Amino acid transport and metabolism];


Pssm-ID: 223154 [Multi-domain]  Cd Length: 460  Bit Score: 78.57  E-value: 1.11e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 164 DGFNVLYNKKPVIYLSAAARPGL---GQYL---CNQ----------DVAFLEKLIKDDIERGrlplLLVANAGTAAVGHT 227
Cdd:COG0076  148 LAESGKPGGKPNIVCSETAHFSFekaARYLglgLRRvptvptdyriDVDALEEAIDENTIGG----VVVGTAGTTDTGSI 223
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 228 DKIGRLKELCEQYGIWLHVEGvnlatlALGyvsSSVLAAAKC-----------DSMTMTPGPWLGLPAVPAVTLYK---- 292
Cdd:COG0076  224 DDIEELADIAEEYGIWLHVDA------AFG---GFLLPFLEPdgrwdfglegvDSITVDGHKYGLAPIGCGVVLFRdeea 294
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 293 ------HDDPALT----LVAGLTSNKPTDklRALPLWLSLQYLGLDGFVERIKHACQLSQRLQESLKKVNYIKILVEDEL 362
Cdd:COG0076  295 lrriliFADYYLPgggiPNFTILGSRPGR--QALALYANLRRLGREGYRKLLDRTLELARYLAEELEKLGDFELVNEPEL 372

                 ....*....
gi 550544195 363 ssPVVVFRF 371
Cdd:COG0076  373 --PIVAFRL 379
Pyridoxal_deC pfam00282
Pyridoxal-dependent decarboxylase conserved domain;
198-370 5.56e-11

Pyridoxal-dependent decarboxylase conserved domain;


Pssm-ID: 395219  Cd Length: 373  Bit Score: 63.59  E-value: 5.56e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195  198 LEKLIKDDIERGRLPLLLVANAGTAAVGHTDKIGRLKELCEQYGIWLHVEGVNLATLALG-YVSSSVLAAAKCDSMTMTP 276
Cdd:pfam00282 185 LEKAIEEDKENGLIPFFVVATLGTTGSGAFDDLQELGDICAKHNLWLHVDAAYGGSAFICpEFRHWLFGIERADSITFNP 264
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195  277 GPWLGLPAvPAVTLYKHDDPALTLVAGL------TSNKPTD----------KLRALPLWLSLQYLGLDGFVERIKHACQL 340
Cdd:pfam00282 265 HKWMLVLL-DCSAVWVKDKEALQQAFQFnplylgHTDSAYDtghkqiplsrRFRILKLWFVIRSLGVEGLQNQIRRHVEL 343
                         170       180       190
                  ....*....|....*....|....*....|
gi 550544195  341 SQRLQESLKKVNYIKILVEDELssPVVVFR 370
Cdd:pfam00282 344 AQYLEALIRKDGRFEICAEVGL--GLVCFR 371
PLN02880 PLN02880
tyrosine decarboxylase
198-406 2.70e-05

tyrosine decarboxylase


Pssm-ID: 215475 [Multi-domain]  Cd Length: 490  Bit Score: 46.05  E-value: 2.70e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 198 LEKLIKDDIERGRLPLLLVANAGTAAVGHTDKIGRLKELCEQYGIWLHVEGvnlatlalGYVSSSVL---------AAAK 268
Cdd:PLN02880 226 LSEAISTDLSSGLIPFFLCATVGTTSSTAVDPLLELGKIAKSNGMWFHVDA--------AYAGSACIcpeyrhyidGVEE 297
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 269 CDSMTMTPGPWLgLPAVPAVTLYKHDDPALTLVAG----LTSNKPTD----------------KLRALPLWLSLQYLGLD 328
Cdd:PLN02880 298 ADSFNMNAHKWF-LTNFDCSLLWVKDRNALIQSLStnpeFLKNKASQansvvdykdwqiplgrRFRSLKLWMVLRLYGVE 376
                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 550544195 329 GFVERIKHACQLSQRLQEslkkvnyikiLVEDELSSPVVVFRFFqelpgSDPVFKAVPVPNMTPSGVGRERHSCDALN 406
Cdd:PLN02880 377 NLQSYIRNHIKLAKEFEQ----------LVAQDSRFEVVTPRIF-----SLVCFRLVPPKNNEDNGNKLNHDLLDAVN 439
 
Name Accession Description Interval E-value
DOPA_deC_like cd06450
DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent ...
172-371 4.21e-19

DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and glutamate decarboxylase (GDC). DDC is active as a dimer and catalyzes the decarboxylation of tyrosine. GDC catalyzes the decarboxylation of glutamate and HDC catalyzes the decarboxylation of histidine.


Pssm-ID: 99743 [Multi-domain]  Cd Length: 345  Bit Score: 88.03  E-value: 4.21e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 172 KKPVIYLSAAARPGL---GQYLCNQ------------DVAFLEKLIKDDIERGRLPLLLVANAGTAAVGHTDKIGRLKEL 236
Cdd:cd06450   94 DKLVIVCSDQAHVSVekaAAYLDVKvrlvpvdedgrmDPEALEAAIDEDKAEGLNPIMVVATAGTTDTGAIDPLEEIADL 173
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 237 CEQYGIWLHVEGvnlatlALGyvsSSVLaaakcdsMTMTPGPWL-GLPAVPAVT------LYKHDDPALTLVagltsnkp 309
Cdd:cd06450  174 AEKYDLWLHVDA------AYG---GFLL-------PFPEPRHLDfGIERVDSISvdphkyGLVPLGCSAVLV-------- 229
                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 550544195 310 tdklRALPLWLSLQYLGLDGFVERIKHACQLSQRLQESLKKVNYIKILVEDELssPVVVFRF 371
Cdd:cd06450  230 ----RALKLWATLRRFGRDGYGEHIDRIVDLAKYLAELIRADPGFELLGEPNL--SLVCFRL 285
GadA COG0076
Glutamate or tyrosine decarboxylase or a related PLP-dependent protein [Amino acid transport ...
164-371 1.11e-15

Glutamate or tyrosine decarboxylase or a related PLP-dependent protein [Amino acid transport and metabolism];


Pssm-ID: 223154 [Multi-domain]  Cd Length: 460  Bit Score: 78.57  E-value: 1.11e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 164 DGFNVLYNKKPVIYLSAAARPGL---GQYL---CNQ----------DVAFLEKLIKDDIERGrlplLLVANAGTAAVGHT 227
Cdd:COG0076  148 LAESGKPGGKPNIVCSETAHFSFekaARYLglgLRRvptvptdyriDVDALEEAIDENTIGG----VVVGTAGTTDTGSI 223
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 228 DKIGRLKELCEQYGIWLHVEGvnlatlALGyvsSSVLAAAKC-----------DSMTMTPGPWLGLPAVPAVTLYK---- 292
Cdd:COG0076  224 DDIEELADIAEEYGIWLHVDA------AFG---GFLLPFLEPdgrwdfglegvDSITVDGHKYGLAPIGCGVVLFRdeea 294
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 293 ------HDDPALT----LVAGLTSNKPTDklRALPLWLSLQYLGLDGFVERIKHACQLSQRLQESLKKVNYIKILVEDEL 362
Cdd:COG0076  295 lrriliFADYYLPgggiPNFTILGSRPGR--QALALYANLRRLGREGYRKLLDRTLELARYLAEELEKLGDFELVNEPEL 372

                 ....*....
gi 550544195 363 ssPVVVFRF 371
Cdd:COG0076  373 --PIVAFRL 379
Pyridoxal_deC pfam00282
Pyridoxal-dependent decarboxylase conserved domain;
198-370 5.56e-11

Pyridoxal-dependent decarboxylase conserved domain;


Pssm-ID: 395219  Cd Length: 373  Bit Score: 63.59  E-value: 5.56e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195  198 LEKLIKDDIERGRLPLLLVANAGTAAVGHTDKIGRLKELCEQYGIWLHVEGVNLATLALG-YVSSSVLAAAKCDSMTMTP 276
Cdd:pfam00282 185 LEKAIEEDKENGLIPFFVVATLGTTGSGAFDDLQELGDICAKHNLWLHVDAAYGGSAFICpEFRHWLFGIERADSITFNP 264
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195  277 GPWLGLPAvPAVTLYKHDDPALTLVAGL------TSNKPTD----------KLRALPLWLSLQYLGLDGFVERIKHACQL 340
Cdd:pfam00282 265 HKWMLVLL-DCSAVWVKDKEALQQAFQFnplylgHTDSAYDtghkqiplsrRFRILKLWFVIRSLGVEGLQNQIRRHVEL 343
                         170       180       190
                  ....*....|....*....|....*....|
gi 550544195  341 SQRLQESLKKVNYIKILVEDELssPVVVFR 370
Cdd:pfam00282 344 AQYLEALIRKDGRFEICAEVGL--GLVCFR 371
PLN02880 PLN02880
tyrosine decarboxylase
198-406 2.70e-05

tyrosine decarboxylase


Pssm-ID: 215475 [Multi-domain]  Cd Length: 490  Bit Score: 46.05  E-value: 2.70e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 198 LEKLIKDDIERGRLPLLLVANAGTAAVGHTDKIGRLKELCEQYGIWLHVEGvnlatlalGYVSSSVL---------AAAK 268
Cdd:PLN02880 226 LSEAISTDLSSGLIPFFLCATVGTTSSTAVDPLLELGKIAKSNGMWFHVDA--------AYAGSACIcpeyrhyidGVEE 297
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 269 CDSMTMTPGPWLgLPAVPAVTLYKHDDPALTLVAG----LTSNKPTD----------------KLRALPLWLSLQYLGLD 328
Cdd:PLN02880 298 ADSFNMNAHKWF-LTNFDCSLLWVKDRNALIQSLStnpeFLKNKASQansvvdykdwqiplgrRFRSLKLWMVLRLYGVE 376
                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 550544195 329 GFVERIKHACQLSQRLQEslkkvnyikiLVEDELSSPVVVFRFFqelpgSDPVFKAVPVPNMTPSGVGRERHSCDALN 406
Cdd:PLN02880 377 NLQSYIRNHIKLAKEFEQ----------LVAQDSRFEVVTPRIF-----SLVCFRLVPPKNNEDNGNKLNHDLLDAVN 439
PLN02590 PLN02590
probable tyrosine decarboxylase
198-385 1.49e-04

probable tyrosine decarboxylase


Pssm-ID: 178200 [Multi-domain]  Cd Length: 539  Bit Score: 43.93  E-value: 1.49e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 198 LEKLIKDDIERGRLPLLLVANAGTAAVGHTDKIGRLKELCEQYGIWLHVEGVNLATLAL-GYVSSSVLAAAKCDSMTMTP 276
Cdd:PLN02590 274 LEEAISHDLAKGFIPFFICATVGTTSSAAVDPLVPLGNIAKKYGIWLHVDAAYAGNACIcPEYRKFIDGIENADSFNMNA 353
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 277 GPWLgLPAVPAVTLYKHDDPALtlvagltsnkpTDKLRALPLWLSLQYLGLDGFVERIKHACQLSQRLQeSLKKVNYIKI 356
Cdd:PLN02590 354 HKWL-FANQTCSPLWVKDRYSL-----------IDALKTNPEYLEFKVSKKDTVVNYKDWQISLSRRFR-SLKLWMVLRL 420
                        170       180       190
                 ....*....|....*....|....*....|...
gi 550544195 357 LVEDELSS----PVVVFRFFQELPGSDPVFKAV 385
Cdd:PLN02590 421 YGSENLRNfirdHVNLAKHFEDYVAQDPSFEVV 453
PLN03032 PLN03032
serine decarboxylase; Provisional
212-391 4.97e-04

serine decarboxylase; Provisional


Pssm-ID: 166673 [Multi-domain]  Cd Length: 374  Bit Score: 42.12  E-value: 4.97e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 212 PLLLVANAGTAAVGHTDKIGRLKELCEQYGI-----WLHVEGVnLATLALGYVSSSVLAAAK--CDSMTMTPGPWLGLPa 284
Cdd:PLN03032 162 PAILNVNIGTTVKGAVDDLDRILRILKELGYtedrfYIHCDGA-LFGLMMPFVSRAPEVTFRkpIGSVSVSGHKFLGCP- 239
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550544195 285 VP---AVTLYKHDDPALTLVAGLTSNKPT-----DKLRALPLWLSLQYLGLDGFVERIKHACQLSQRLQESLKKVNYIKI 356
Cdd:PLN03032 240 MPcgvALTRKKHVKALSQNVEYLNSRDATimgsrNGHAPLYLWYTLRRKGYRGIKRDVQHCMRNAHYLKDRLTEAGLTCR 319
                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 550544195 357 LveDELSSPVVVFRFFQE-------LPGSDPVFKAVPVPNMT 391
Cdd:PLN03032 320 L--NELSSTVVFERPMDEafikkwqLACEGDIAHVVVMPNVT 359
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.20
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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