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(-) Description

Title :  CRYSTAL STRUCTURE OF PYRUVATE DECARBOXYLASE FROM KLUYVEROMYCES LACTIS
 
Authors :  S. Kutter, S. Relle, G. Wille, M. S. Weiss, S. Konig
Date :  17 Dec 07  (Deposition) - 27 Jan 09  (Release) - 27 Jan 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Metal-Binding, Decarboxylase, Dimer Of Dimers, Substrate Activation, Thiamine Diphosphate, Tdp, Tpp, Lyase, Magnesium, Flavoprotein, Thiamine Pyrophosphate, Asymmetric Active Sites (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Konig, M. Spinka, S. Kutter
Allosteric Activation Of Pyruvate Decarboxylases. A Never-Ending Story?
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PYRUVATE DECARBOXYLASE
    Chains: A, B, C, D
    EC Number: 4.1.1.1
    Organism Scientific: KLUYVEROMYCES LACTIS
    Organism Taxid: 28985

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 8)

Asymmetric Unit (2, 8)
No.NameCountTypeFull Name
1MG4Ligand/IonMAGNESIUM ION
2TPP4Ligand/IonTHIAMINE DIPHOSPHATE
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
2TPP2Ligand/IonTHIAMINE DIPHOSPHATE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
2TPP2Ligand/IonTHIAMINE DIPHOSPHATE

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:389 , THR A:390 , GLY A:413 , SER A:414 , ILE A:415 , GLY A:443 , ASP A:444 , GLY A:445 , SER A:446 , ASN A:471 , GLY A:473 , TYR A:474 , THR A:475 , ILE A:476 , GLU A:477 , MG A:601 , HOH A:2238 , HOH A:2309 , HOH A:2310 , PRO B:26 , GLY B:27 , GLU B:51 , VAL B:76BINDING SITE FOR RESIDUE TPP A 600
2AC2SOFTWAREASP A:444 , ASN A:471 , GLY A:473 , TPP A:600 , HOH A:2238BINDING SITE FOR RESIDUE MG A 601
3AC3SOFTWAREPRO A:26 , GLY A:27 , GLU A:51 , VAL A:76 , GLY B:389 , THR B:390 , GLY B:413 , SER B:414 , ILE B:415 , GLY B:443 , ASP B:444 , GLY B:445 , SER B:446 , ASN B:471 , GLY B:473 , TYR B:474 , THR B:475 , ILE B:476 , GLU B:477 , MG B:601 , HOH B:2215 , HOH B:2256 , HOH B:2325 , HOH B:2326BINDING SITE FOR RESIDUE TPP B 600
4AC4SOFTWAREASP B:444 , ASN B:471 , GLY B:473 , TPP B:600 , HOH B:2256BINDING SITE FOR RESIDUE MG B 601
5AC5SOFTWARETHR C:390 , GLY C:413 , SER C:414 , ILE C:415 , GLY C:443 , ASP C:444 , GLY C:445 , SER C:446 , ASN C:471 , GLY C:473 , TYR C:474 , THR C:475 , ILE C:476 , GLU C:477 , MG C:601 , HOH C:2260 , HOH C:2374 , HOH C:2375 , HOH C:2376 , PRO D:26 , GLY D:27 , GLU D:51 , VAL D:76BINDING SITE FOR RESIDUE TPP C 600
6AC6SOFTWAREASP C:444 , ASN C:471 , GLY C:473 , TPP C:600 , HOH C:2374BINDING SITE FOR RESIDUE MG C 601
7AC7SOFTWAREPRO C:26 , GLY C:27 , GLU C:51 , VAL C:76 , GLY D:389 , THR D:390 , GLY D:413 , SER D:414 , ILE D:415 , GLY D:443 , ASP D:444 , GLY D:445 , SER D:446 , ASN D:471 , GLY D:473 , TYR D:474 , THR D:475 , ILE D:476 , GLU D:477 , MG D:601 , HOH D:2196 , HOH D:2197 , HOH D:2237 , HOH D:2307BINDING SITE FOR RESIDUE TPP D 600
8AC8SOFTWAREASP D:444 , ASN D:471 , GLY D:473 , TPP D:600 , HOH D:2237BINDING SITE FOR RESIDUE MG D 601

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2VK4)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2VK4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2VK4)

(-) PROSITE Motifs  (1, 4)

Asymmetric Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TPP_ENZYMESPS00187 Thiamine pyrophosphate enzymes signature.PDC1_KLULA427-446
 
 
 		  4A:427-446
B:427-446
C:427-446
D:427-446
Biological Unit 1 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TPP_ENZYMESPS00187 Thiamine pyrophosphate enzymes signature.PDC1_KLULA427-446
 
 
 		  2A:427-446
B:427-446
-
-
Biological Unit 2 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TPP_ENZYMESPS00187 Thiamine pyrophosphate enzymes signature.PDC1_KLULA427-446
 
 
 		  2-
-
C:427-446
D:427-446

(-) Exons   (0, 0)

(no "Exon" information available for 2VK4)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:560
 aligned with PDC1_KLULA | Q12629 from UniProtKB/Swiss-Prot  Length:563

    Alignment length:562
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561  
           PDC1_KLULA     2 SEITLGRYLFERLKQVEVQTIFGLPGDFNLSLLDNIYEVPGMRWAGNANELNAAYAADGYARLKGMSCIITTFGVGELSALNGIAGSYAEHVGVLHVVGVPSVSSQAKQLLLHHTLGNGDFTVFHRMSSNISETTAMITDINTAPAEIDRCIRTTYVSQRPVYLGLPANLVDLTVPASLLDTPIDLSLKPNDPEAEEEVIENVLQLIKEAKNPVILADACCSRHDAKAETKKLIDLTQFPAFVTPMGKGSIDEKHPRFGGVYVGTLSSPAVKEAVESADLVLSVGALLSDFNTGSFSYSYKTKNIVEFHSDYTKIRSATFPGVQMKFALQKLLTKVADAAKGYKPVPVPSEPEHNEAVADSTPLKQEWVWTQVGEFLREGDVVITETGTSAFGINQTHFPNNTYGISQVLWGSIGFTTGATLGAAFAAEEIDPKKRVILFIGDGSLQLTVQEISTMIRWGLKPYLFVLNNDGYTIERLIHGETAQYNCIQNWQHLELLPTFGAKDYEAVRVSTTGEWNKLTTDEKFQDNTRIRLIEVMLPTMDAPSNLVKQAQLTAATNAKN 563
               SCOP domains d2vk4a1 A:2-181 automated matches                                                                                                                                                   d2vk4a2 A:182-360 automated matches                                                                                                                                                d2vk4a3 A:361-563 automated matches                                                                                                                                                                         SCOP domains
               CATH domains 2vk4A01 A:2-188  [code=3.40.50.970, no name defined]                                                                                                                                       2vk4A02 A:189-352 TPP-binding domain                                                                                                                                2vk4A03 A:353-554  [code=3.40.50.970, no name defined]                                                                                                                                                    --------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeehhhhhhhhhhhh...eeee.....hhhhhhhhhhh...ee....hhhhhhhhhhhhhhhhh.eeeeee.hhhhhhhhhhhhhhhhh...eeeeeee...--.hhhhhhhh.......hhhhhhhhh...eeee.....hhhhhhhhhhhhhhhhh..eeeeeehhhhh.eee.hhhhh.........hhhhhhhhhhhhhhhhhhh..eeeee........hhhhhhhhhhhhh..eee..............eeee.hhhhhhhhhhhhhhh..eeeee....................eeee...eeee..eeee..hhhhhhhhhhhhhhhhh........................hhhhhhhhhhhhh....eeee..hhhhhhhhhh......eee........hhhhhhhhhhhhhhhhhh....eeeeeehhhhhhhhhhhhhhhhh....eeeeee...hhhhhhhh...hhhhh....hhhhhhhhh....eeeeee.hhhhhhhhhhhhhhhh...eeeeeee......hhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TPP_ENZYMES         --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vk4 A   2 SEITLGRYLFERLKQVEVQTIFGLPGDFNLSLLDNIYEVPGMRWAGNANELNAAYAADGYARLKGMSCIITTFGVGELSALNGIAGSYAEHVGVLHVVGVPSV--QAKQLLLHHTLGNGDFTVFHRMSSNISETTAMITDINTAPAEIDRCIRTTYVSQRPVYLGLPANLVDLTVPASLLDTPIDLSLKPNDPEAEEEVIENVLQLIKEAKNPVILADACCSRHDAKAETKKLIDLTQFPAFVTPMGKGSIDEKHPRFGGVYVGTLSSPAVKEAVESADLVLSVGALLSDFNTGSFSYSYKTKNIVEFHSDYTKIRSATFPGVQMKFALQKLLTKVADAAKGYKPVPVPSEPEHNEAVADSTPLKQEWVWTQVGEFLREGDVVITETGTSAFGINQTHFPNNTYGISQVLWGSIGFTTGATLGAAFAAEEIDPKKRVILFIGDGSLQLTVQEISTMIRWGLKPYLFVLNNDGYTIERLIHGETAQYNCIQNWQHLELLPTFGAKDYEAVRVSTTGEWNKLTTDEKFQDNTRIRLIEVMLPTMDAPSNLVKQAQLTAATNAKN 563
                                    11        21        31        41        51        61        71        81        91       101  |  | 111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561  
                                                                                                                                104  |                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
                                                                                                                                   107                                                                                                                                                                                                                                                                                                                                                                                                                                                                        


Chain B from PDB  Type:PROTEIN  Length:557
 aligned with PDC1_KLULA | Q12629 from UniProtKB/Swiss-Prot  Length:563

    Alignment length:560
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561
           PDC1_KLULA     2 SEITLGRYLFERLKQVEVQTIFGLPGDFNLSLLDNIYEVPGMRWAGNANELNAAYAADGYARLKGMSCIITTFGVGELSALNGIAGSYAEHVGVLHVVGVPSVSSQAKQLLLHHTLGNGDFTVFHRMSSNISETTAMITDINTAPAEIDRCIRTTYVSQRPVYLGLPANLVDLTVPASLLDTPIDLSLKPNDPEAEEEVIENVLQLIKEAKNPVILADACCSRHDAKAETKKLIDLTQFPAFVTPMGKGSIDEKHPRFGGVYVGTLSSPAVKEAVESADLVLSVGALLSDFNTGSFSYSYKTKNIVEFHSDYTKIRSATFPGVQMKFALQKLLTKVADAAKGYKPVPVPSEPEHNEAVADSTPLKQEWVWTQVGEFLREGDVVITETGTSAFGINQTHFPNNTYGISQVLWGSIGFTTGATLGAAFAAEEIDPKKRVILFIGDGSLQLTVQEISTMIRWGLKPYLFVLNNDGYTIERLIHGETAQYNCIQNWQHLELLPTFGAKDYEAVRVSTTGEWNKLTTDEKFQDNTRIRLIEVMLPTMDAPSNLVKQAQLTAATNA 561
               SCOP domains d2vk4b1 B:2-181 automated matches                                                                                                                                                   d2vk4b2 B:182-360 automated matches                                                                                                                                                d2vk4b3 B:361-561 automated matches                                                                                                                                                                       SCOP domains
               CATH domains 2vk4B01 B:2-188  [code=3.40.50.970, no name defined]                                                                                                                                       2vk4B02 B:189-352 TPP-binding domain                                                                                                                                2vk4B03 B:353-554  [code=3.40.50.970, no name defined]                                                                                                                                                    ------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeehhhhhhhhhhhh...eeee.....hhhhhhhhhh....ee....hhhhhhhhhhhhhhhhh.eeeeee.hhhhhhhhhhhhhhhhh...eeeeeee.......---...........hhhhhhhhh...eeee.....hhhhhhhhhhhhhhhhh..eeeeeehhhhhheee.hhhhh.........hhhhhhhhhhhhhhhhhhh..eeeee.hhhhhh.hhhhhhhhhhhhh..eee.hhhh.........eeee.hhhhhhhhhhhhhhh..eeeee......ee....ee......eeee...eeee..eeee..hhhhhhhhhhhhhhhhh........................hhhhhhhhhhhhh....eeee..hhhhhhhhhh......eee........hhhhhhhhhhhhhhhhhh....eeeeeehhhhhhhhhhhhhhhhh....eeeeee...hhhhhhhh...hhhhh....hhhhhhhhh....eeeeee.hhhhhhhhhh.........eeeeeee......hhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TPP_ENZYMES         ------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vk4 B   2 SEITLGRYLFERLKQVEVQTIFGLPGDFNLSLLDNIYEVPGMRWAGNANELNAAYAADGYARLKGMSCIITTFGVGELSALNGIAGSYAEHVGVLHVVGVPSVSSQA---LLHHTLGNGDFTVFHRMSSNISETTAMITDINTAPAEIDRCIRTTYVSQRPVYLGLPANLVDLTVPASLLDTPIDLSLKPNDPEAEEEVIENVLQLIKEAKNPVILADACCSRHDAKAETKKLIDLTQFPAFVTPMGKGSIDEKHPRFGGVYVGTLSSPAVKEAVESADLVLSVGALLSDFNTGSFSYSYKTKNIVEFHSDYTKIRSATFPGVQMKFALQKLLTKVADAAKGYKPVPVPSEPEHNEAVADSTPLKQEWVWTQVGEFLREGDVVITETGTSAFGINQTHFPNNTYGISQVLWGSIGFTTGATLGAAFAAEEIDPKKRVILFIGDGSLQLTVQEISTMIRWGLKPYLFVLNNDGYTIERLIHGETAQYNCIQNWQHLELLPTFGAKDYEAVRVSTTGEWNKLTTDEKFQDNTRIRLIEVMLPTMDAPSNLVKQAQLTAATNA 561
                                    11        21        31        41        51        61        71        81        91       101      |  -|      121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561
                                                                                                                                    108 112                                                                                                                                                                                                                                                                                                                                                                                                                                                                 


Chain C from PDB  Type:PROTEIN  Length:555
 aligned with PDC1_KLULA | Q12629 from UniProtKB/Swiss-Prot  Length:563

    Alignment length:559
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551         
           PDC1_KLULA     2 SEITLGRYLFERLKQVEVQTIFGLPGDFNLSLLDNIYEVPGMRWAGNANELNAAYAADGYARLKGMSCIITTFGVGELSALNGIAGSYAEHVGVLHVVGVPSVSSQAKQLLLHHTLGNGDFTVFHRMSSNISETTAMITDINTAPAEIDRCIRTTYVSQRPVYLGLPANLVDLTVPASLLDTPIDLSLKPNDPEAEEEVIENVLQLIKEAKNPVILADACCSRHDAKAETKKLIDLTQFPAFVTPMGKGSIDEKHPRFGGVYVGTLSSPAVKEAVESADLVLSVGALLSDFNTGSFSYSYKTKNIVEFHSDYTKIRSATFPGVQMKFALQKLLTKVADAAKGYKPVPVPSEPEHNEAVADSTPLKQEWVWTQVGEFLREGDVVITETGTSAFGINQTHFPNNTYGISQVLWGSIGFTTGATLGAAFAAEEIDPKKRVILFIGDGSLQLTVQEISTMIRWGLKPYLFVLNNDGYTIERLIHGETAQYNCIQNWQHLELLPTFGAKDYEAVRVSTTGEWNKLTTDEKFQDNTRIRLIEVMLPTMDAPSNLVKQAQLTAATN 560
               SCOP domains d2vk4c1 C:2-181 automated matches                                                                                                                                                   d2vk4c2 C:182-360 automated matches                                                                                                                                                d2vk4c3 C:361-560 automated matches                                                                                                                                                                      SCOP domains
               CATH domains 2vk4C01 C:2-188  [code=3.40.50.970, no name defined]                                                                                                                                       2vk4C02 C:189-352 TPP-binding domain                                                                                                                                2vk4C03 C:353-554  [code=3.40.50.970, no name defined]                                                                                                                                                    ------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeehhhhhhhhhhhh...eeee.....hhhhhhhhhhh...ee....hhhhhhhhhhhhhhhhh.eeeeee.hhhhhhhhhhhhhhhhhh..eeeeeee..----hhhhhhhh.......hhhhhhhhh...eeee.....hhhhhhhhhhhhhhhhh..eeeeeehhhhhheee.hhhhh.........hhhhhhhhhhhhhhhhhhh..eeeee.hhhhhh.hhhhhhhhhhhhh..eee..............eeee.hhhhhhhhhhhhhhh..eeeee......ee....ee......eeee...eeee..eeee..hhhhhhhhhhhhhhhhh........................hhhhhhhhhhhhh....eeee..hhhhhhhhhh......eeee.......hhhhhhhhhhhhhhhhhh....eeeeeehhhhhhhhhhhhhhhhh....eeeeee...hhhhhhhh...hhhhh....hhhhhhhhh....eeeeee.hhhhhhhhhh.........eeeeeee......hhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TPP_ENZYMES         ------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vk4 C   2 SEITLGRYLFERLKQVEVQTIFGLPGDFNLSLLDNIYEVPGMRWAGNANELNAAYAADGYARLKGMSCIITTFGVGELSALNGIAGSYAEHVGVLHVVGVPS----AKQLLLHHTLGNGDFTVFHRMSSNISETTAMITDINTAPAEIDRCIRTTYVSQRPVYLGLPANLVDLTVPASLLDTPIDLSLKPNDPEAEEEVIENVLQLIKEAKNPVILADACCSRHDAKAETKKLIDLTQFPAFVTPMGKGSIDEKHPRFGGVYVGTLSSPAVKEAVESADLVLSVGALLSDFNTGSFSYSYKTKNIVEFHSDYTKIRSATFPGVQMKFALQKLLTKVADAAKGYKPVPVPSEPEHNEAVADSTPLKQEWVWTQVGEFLREGDVVITETGTSAFGINQTHFPNNTYGISQVLWGSIGFTTGATLGAAFAAEEIDPKKRVILFIGDGSLQLTVQEISTMIRWGLKPYLFVLNNDGYTIERLIHGETAQYNCIQNWQHLELLPTFGAKDYEAVRVSTTGEWNKLTTDEKFQDNTRIRLIEVMLPTMDAPSNLVKQAQLTAATN 560
                                    11        21        31        41        51        61        71        81        91       101 |    |111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551         
                                                                                                                               103  108                                                                                                                                                                                                                                                                                                                                                                                                                                                                    


Chain D from PDB  Type:PROTEIN  Length:560
 aligned with PDC1_KLULA | Q12629 from UniProtKB/Swiss-Prot  Length:563

    Alignment length:562
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561  
           PDC1_KLULA     2 SEITLGRYLFERLKQVEVQTIFGLPGDFNLSLLDNIYEVPGMRWAGNANELNAAYAADGYARLKGMSCIITTFGVGELSALNGIAGSYAEHVGVLHVVGVPSVSSQAKQLLLHHTLGNGDFTVFHRMSSNISETTAMITDINTAPAEIDRCIRTTYVSQRPVYLGLPANLVDLTVPASLLDTPIDLSLKPNDPEAEEEVIENVLQLIKEAKNPVILADACCSRHDAKAETKKLIDLTQFPAFVTPMGKGSIDEKHPRFGGVYVGTLSSPAVKEAVESADLVLSVGALLSDFNTGSFSYSYKTKNIVEFHSDYTKIRSATFPGVQMKFALQKLLTKVADAAKGYKPVPVPSEPEHNEAVADSTPLKQEWVWTQVGEFLREGDVVITETGTSAFGINQTHFPNNTYGISQVLWGSIGFTTGATLGAAFAAEEIDPKKRVILFIGDGSLQLTVQEISTMIRWGLKPYLFVLNNDGYTIERLIHGETAQYNCIQNWQHLELLPTFGAKDYEAVRVSTTGEWNKLTTDEKFQDNTRIRLIEVMLPTMDAPSNLVKQAQLTAATNAKN 563
               SCOP domains d2vk4d1 D:2-181 automated matches                                                                                                                                                   d2vk4d2 D:182-360 automated matches                                                                                                                                                d2vk4d3 D:361-563 automated matches                                                                                                                                                                         SCOP domains
               CATH domains 2vk4D01 D:2-188  [code=3.40.50.970, no name defined]                                                                                                                                       2vk4D02 D:189-352 TPP-binding domain                                                                                                                                2vk4D03 D:353-554  [code=3.40.50.970, no name defined]                                                                                                                                                    --------- CATH domains
           Pfam domains (1) --TPP_enzyme_N-2vk4D09 D:4-180                                                                                                                                                     --------------------TPP_enzyme_M-2vk4D01 D:201-337                                                                                                           -------------------------------------------------TPP_enzyme_C-2vk4D05 D:387-538                                                                                                                          ------------------------- Pfam domains (1)
           Pfam domains (2) --TPP_enzyme_N-2vk4D10 D:4-180                                                                                                                                                     --------------------TPP_enzyme_M-2vk4D02 D:201-337                                                                                                           -------------------------------------------------TPP_enzyme_C-2vk4D06 D:387-538                                                                                                                          ------------------------- Pfam domains (2)
           Pfam domains (3) --TPP_enzyme_N-2vk4D11 D:4-180                                                                                                                                                     --------------------TPP_enzyme_M-2vk4D03 D:201-337                                                                                                           -------------------------------------------------TPP_enzyme_C-2vk4D07 D:387-538                                                                                                                          ------------------------- Pfam domains (3)
           Pfam domains (4) --TPP_enzyme_N-2vk4D12 D:4-180                                                                                                                                                     --------------------TPP_enzyme_M-2vk4D04 D:201-337                                                                                                           -------------------------------------------------TPP_enzyme_C-2vk4D08 D:387-538                                                                                                                          ------------------------- Pfam domains (4)
         Sec.struct. author .eeehhhhhhhhhhhh...eeee.....hhhhhhhhhhh...ee....hhhhhhhhhhhhhhhhh.eeeeee.hhhhhhhhhhhhhhhhh...eeeeeee...--.hhhhhhhh.......hhhhhhhhh...eeee.....hhhhhhhhhhhhhhhhh..eeeeeehhhhh.eee.hhhhh.........hhhhhhhhhhhhhhhhhhh..eeeee.hhhhhh.hhhhhhhhhhhhh..eee.hhhh.........eeee.hhhhhhhhhhhhhhh..eeeee......ee....ee......eeee...eeee..eeee..hhhhhhhhhhhhhhhhh........................hhhhhhhhhhhhh....eeee..hhhhhhhhhh......eee........hhhhhhhhhhhhhhhhhh....eeeeeehhhhhhhhhhhhhhhhh....eeeeee...hhhhhhhh...hhhhh....hhhhhhhhh....eeeeee.hhhhhhhhhh.........eeeeeee......hhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TPP_ENZYMES         --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vk4 D   2 SEITLGRYLFERLKQVEVQTIFGLPGDFNLSLLDNIYEVPGMRWAGNANELNAAYAADGYARLKGMSCIITTFGVGELSALNGIAGSYAEHVGVLHVVGVPSV--QAKQLLLHHTLGNGDFTVFHRMSSNISETTAMITDINTAPAEIDRCIRTTYVSQRPVYLGLPANLVDLTVPASLLDTPIDLSLKPNDPEAEEEVIENVLQLIKEAKNPVILADACCSRHDAKAETKKLIDLTQFPAFVTPMGKGSIDEKHPRFGGVYVGTLSSPAVKEAVESADLVLSVGALLSDFNTGSFSYSYKTKNIVEFHSDYTKIRSATFPGVQMKFALQKLLTKVADAAKGYKPVPVPSEPEHNEAVADSTPLKQEWVWTQVGEFLREGDVVITETGTSAFGINQTHFPNNTYGISQVLWGSIGFTTGATLGAAFAAEEIDPKKRVILFIGDGSLQLTVQEISTMIRWGLKPYLFVLNNDGYTIERLIHGETAQYNCIQNWQHLELLPTFGAKDYEAVRVSTTGEWNKLTTDEKFQDNTRIRLIEVMLPTMDAPSNLVKQAQLTAATNAKN 563
                                    11        21        31        41        51        61        71        81        91       101  |  | 111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561  
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 Classification and Annotation

(-) SCOP Domains  (2, 12)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (2, 12)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (3, 12)

Asymmetric Unit
(-)
Clan: FAD_DHS (82)
(-)
Clan: THDP-binding (106)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (PDC1_KLULA | Q12629)
molecular function
    GO:0016831    carboxy-lyase activity    Catalysis of the nonhydrolytic addition or removal of a carboxyl group to or from a compound.
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
    GO:0000287    magnesium ion binding    Interacting selectively and non-covalently with magnesium (Mg) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0004737    pyruvate decarboxylase activity    Catalysis of the reaction: a 2-oxo acid = an aldehyde + CO2.
    GO:0030976    thiamine pyrophosphate binding    Interacting selectively and non-covalently with thiamine pyrophosphate, the diphosphoric ester of thiamine. Acts as a coenzyme of several (de)carboxylases, transketolases, and alpha-oxoacid dehydrogenases.

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  PDC1_KLULA | Q12629
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        PDC1_KLULA | Q12629: 2vjy

(-) Related Entries Specified in the PDB File

2g1i CRYSTAL STRUCTURE OF PYRUVATE DECARBOXYLASE FROMKLUYVEROMYCES LACTIS