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(-) Description

Title :  PYRUVATE DECARBOXYLASE VARIANT GLU473ASP FROM Z. MOBILIS IN COMPLEX WITH REACTION INTERMEDIATE 2-LACTYL-THDP
 
Authors :  D. Meyer, P. Neumann, C. Parthier, K. Tittmann
Date :  12 Aug 10  (Deposition) - 08 Sep 10  (Release) - 12 Jan 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.99
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Meyer, P. Neumann, C. Parthier, R. Friedemann, N. Nemeria, F. Jordan, K. Tittmann
Double Duty For A Conserved Glutamate In Pyruvate Decarboxylase: Evidence Of The Participation In Stereoelectronically Controlled Decarboxylation And In Protonation Of The Nascent Carbanion/Enamine Intermediate .
Biochemistry V. 49 8197 2010
PubMed-ID: 20715795  |  Reference-DOI: 10.1021/BI100828R

(-) Compounds

Molecule 1 - PYRUVATE DECARBOXYLASE
    Chains: A, B, C, D
    EC Number: 4.1.1.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: PDC, ZMO1360
    Mutation: YES
    Organism Scientific: ZYMOMONAS MOBILIS
    Organism Taxid: 542
    Synonym: PDC

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 10)

Asymmetric/Biological Unit (3, 10)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
2MG4Ligand/IonMAGNESIUM ION
3TDL4Ligand/Ion3-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-2-(1-CARBOXY-1-HYDROXYETHYL)-5-(2-{[HYDROXY(PHOSPHONOOXY)PHOSPHORYL]OXY}ETHYL)-4-METHYL-1,3-THIAZOL-3-IUM

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:440 , ASN A:467 , GLY A:469 , TDL A:611 , HOH A:1251BINDING SITE FOR RESIDUE MG A 601
02AC2SOFTWAREASP B:440 , ASN B:467 , GLY B:469 , TDL B:611 , HOH B:897BINDING SITE FOR RESIDUE MG B 601
03AC3SOFTWAREASP C:440 , ASN C:467 , GLY C:469 , TDL C:611 , HOH C:1252BINDING SITE FOR RESIDUE MG C 601
04AC4SOFTWAREASP D:440 , ASN D:467 , GLY D:469 , TDL D:611 , HOH D:898BINDING SITE FOR RESIDUE MG D 601
05AC5SOFTWARETYR A:290 , THR A:388 , GLY A:389 , ASP A:390 , GLY A:413 , HIS A:414 , ILE A:415 , GLY A:439 , ASP A:440 , GLY A:441 , SER A:442 , ASN A:467 , GLY A:469 , TYR A:470 , THR A:471 , ILE A:472 , ASP A:473 , ILE A:476 , HOH A:599 , MG A:601 , HOH A:627 , HOH A:734 , HOH A:1251 , ALA B:25 , GLY B:26 , ASP B:27 , GLU B:50 , VAL B:75 , HIS B:114BINDING SITE FOR RESIDUE TDL A 611
06AC6SOFTWAREALA A:25 , GLY A:26 , ASP A:27 , GLU A:50 , VAL A:75 , HIS A:114 , HOH A:637 , TYR B:290 , THR B:388 , GLY B:389 , ASP B:390 , GLY B:413 , HIS B:414 , ILE B:415 , GLY B:439 , ASP B:440 , GLY B:441 , SER B:442 , ASN B:467 , GLY B:469 , TYR B:470 , THR B:471 , ILE B:472 , ASP B:473 , HOH B:578 , MG B:601 , HOH B:635 , HOH B:686 , HOH B:897BINDING SITE FOR RESIDUE TDL B 611
07AC7SOFTWARETYR C:290 , THR C:388 , GLY C:389 , ASP C:390 , GLY C:413 , HIS C:414 , ILE C:415 , GLY C:439 , ASP C:440 , GLY C:441 , SER C:442 , ASN C:467 , GLY C:469 , TYR C:470 , THR C:471 , ILE C:472 , ASP C:473 , HOH C:599 , MG C:601 , HOH C:624 , HOH C:1252 , ALA D:25 , GLY D:26 , ASP D:27 , GLU D:50 , THR D:72 , VAL D:75 , HIS D:114 , HOH D:750BINDING SITE FOR RESIDUE TDL C 611
08AC8SOFTWAREALA C:25 , GLY C:26 , ASP C:27 , GLU C:50 , VAL C:75 , HIS C:114 , HOH C:615 , TYR D:290 , THR D:388 , GLY D:389 , ASP D:390 , GLY D:413 , HIS D:414 , ILE D:415 , GLY D:439 , ASP D:440 , GLY D:441 , SER D:442 , ASN D:467 , GLY D:469 , TYR D:470 , THR D:471 , ILE D:472 , ASP D:473 , MG D:601 , HOH D:638 , HOH D:753 , HOH D:898BINDING SITE FOR RESIDUE TDL D 611
09AC9SOFTWAREALA D:61 , ARG D:62 , GLY D:65 , ARG D:221 , HOH D:623 , HOH D:671 , HOH D:1055BINDING SITE FOR RESIDUE GOL D 569
10BC1SOFTWAREPRO B:430 , PRO B:459 , THR B:529 , GLU D:369 , ARG D:372BINDING SITE FOR RESIDUE GOL D 570

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3OE1)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3OE1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3OE1)

(-) PROSITE Motifs  (1, 4)

Asymmetric/Biological Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TPP_ENZYMESPS00187 Thiamine pyrophosphate enzymes signature.PDC_ZYMMO423-442
 
 
 		  4A:423-442
B:423-442
C:423-442
D:423-442

(-) Exons   (0, 0)

(no "Exon" information available for 3OE1)

(-) Sequences/Alignments

Asymmetric/Biological 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:565
 aligned with PDC_ZYMMO | P06672 from UniProtKB/Swiss-Prot  Length:568

    Alignment length:565
                                    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     
            PDC_ZYMMO     2 SYTVGTYLAERLVQIGLKHHFAVAGDYNLVLLDNLLLNKNMEQVYCCNELNCGFSAEGYARAKGAAAAVVTYSVGALSAFDAIGGAYAENLPVILISGAPNNNDHAAGHVLHHALGKTDYHYQLEMAKNITAAAEAIYTPEEAPAKIDHVIKTALREKKPVYLEIACNIASMPCAAPGPASALFNDEASDEASLNAAVEETLKFIANRDKVAVLVGSKLRAAGAEEAAVKFADALGGAVATMAAAKSFFPEENPHYIGTSWGEVSYPGVEKTMKEADAVIALAPVFNDYSTTGWTDIPDPKKLVLAEPRSVVVNGIRFPSVHLKDYLTRLAQKVSKKTGALDFFKSLNAGELKKAAPADPSAPLVNAEIARQVEALLTPNTTVIAETGDSWFNAQRMKLPNGARVEYEMQWGHIGWSVPAAFGYAVGAPERRNILMVGDGSFQLTAQEVAQMVRLKLPVIIFLINNYGYTIEVMIHDGPYNNIKNWDYAGLMEVFNGNGGYDSGAGKGLKAKTGGELAEAIKVALANTDGPTLIECFIGREDCTEELVKWGKRVAAANSRKPVNK 566
               SCOP domains d3oe1a1 A:2-187 automated matches                                                                                                                                                         d3oe1a2 A:188-362 automated matches                                                                                                                                            d3oe1a3 A:363-566 automated matches                                                                                                                                                                          SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eehhhhhhhhhhhh...eeee.....hhhhhhhhhh....eeee..hhhhhhhhhhhhhhhhh.eeeee....hhhhhhhhhhhhhhh...eeeeeee.hhhhh...............hhhhhhhhhhh.eeeee.hhhhhhhhhhhhhhhhhhhh..eeeeee......ee.ee.hhhhhh.....hhhhhhhhhhhhhhhhh....eeeee..hhhhhhhhhhhhhhhhhhh.eeeee.hhh.........eeeeehhhhh..hhhhhhhhh.eeeee....................eeee...eeee..eeee..hhhhhhhhhhhhh...hhhhhhhhhh.................hhhhhhhhhhh.....eeeee..hhhhhhhhhh......eee.........hhhhhhhhhhhhh...eeeeeeehhhhhhhh.hhhhhhhh....eeeeee...hhhhhh...hhhhh....hhhhhhhhhhh.........eeeee.hhhhhhhhhhhhhhh....eeeeee......hhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TPP_ENZYMES         ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3oe1 A   2 SYTVGTYLAERLVQIGLKHHFAVAGDYNLVLLDNLLLNKNMEQVYCCNELNCGFSAEGYARAKGAAAAVVTYSVGALSAFDAIGGAYAENLPVILISGAPNNNDHAAGHVLHHALGKTDYHYQLEMAKNITAAAEAIYTPEEAPAKIDHVIKTALREKKPVYLEIACNIASMPCAAPGPASALFNDEASDEASLNAAVEETLKFIANRDKVAVLVGSKLRAAGAEEAAVKFADALGGAVATMAAAKSFFPEENPHYIGTSWGEVSYPGVEKTMKEADAVIALAPVFNDYSTTGWTDIPDPKKLVLAEPRSVVVNGIRFPSVHLKDYLTRLAQKVSKKTGALDFFKSLNAGELKKAAPADPSAPLVNAEIARQVEALLTPNTTVIAETGDSWFNAQRMKLPNGARVEYEMQWGHIGWSVPAAFGYAVGAPERRNILMVGDGSFQLTAQEVAQMVRLKLPVIIFLINNYGYTIDVMIHDGPYNNIKNWDYAGLMEVFNGNGGYDSGAGKGLKAKTGGELAEAIKVALANTDGPTLIECFIGREDCTEELVKWGKRVAAANSRKPVNK 566
                                    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     


Chain B from PDB  Type:PROTEIN  Length:560
 aligned with PDC_ZYMMO | P06672 from UniProtKB/Swiss-Prot  Length:568

    Alignment length:565
                                    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     
            PDC_ZYMMO     2 SYTVGTYLAERLVQIGLKHHFAVAGDYNLVLLDNLLLNKNMEQVYCCNELNCGFSAEGYARAKGAAAAVVTYSVGALSAFDAIGGAYAENLPVILISGAPNNNDHAAGHVLHHALGKTDYHYQLEMAKNITAAAEAIYTPEEAPAKIDHVIKTALREKKPVYLEIACNIASMPCAAPGPASALFNDEASDEASLNAAVEETLKFIANRDKVAVLVGSKLRAAGAEEAAVKFADALGGAVATMAAAKSFFPEENPHYIGTSWGEVSYPGVEKTMKEADAVIALAPVFNDYSTTGWTDIPDPKKLVLAEPRSVVVNGIRFPSVHLKDYLTRLAQKVSKKTGALDFFKSLNAGELKKAAPADPSAPLVNAEIARQVEALLTPNTTVIAETGDSWFNAQRMKLPNGARVEYEMQWGHIGWSVPAAFGYAVGAPERRNILMVGDGSFQLTAQEVAQMVRLKLPVIIFLINNYGYTIEVMIHDGPYNNIKNWDYAGLMEVFNGNGGYDSGAGKGLKAKTGGELAEAIKVALANTDGPTLIECFIGREDCTEELVKWGKRVAAANSRKPVNK 566
               SCOP domains d3oe1b1 B:2-187 automated matches                                                                                                                                                         d3oe1b2 B:188-362 automated matches                                                                                                                                            d3oe1b3 B:363-566 automated matches                                                                                                                                                                          SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eehhhhhhhhhhhh...eeee.....hhhhhhhhhh....eeee..hhhhhhhhhhhhhhhhh.eeeee....hhhhhhhhhhhhhhh...eeeeeee.hhhhh...............hhhhhhhhh...eeeee.hhhhhhhhhhhhhhhhhhhh..eeeeee.hhh..ee.ee.hhhhhhh....hhhhhhhhhhhhhhhh.....eeeee........hhhhhhhhhhhhh.eeeee.hhh.........eeeeehhhhh..hhhhhhhhh.eeeee................hhh.eeee...eeee..eeee..hhhhhhhhhhhhh...hhhhhhhhh...-----..........hhhhhhhhhhh.....eeeee..hhhhhhhhh.......eeee........hhhhhhhhhhhhh...eeeeeeehhhhhhhh.hhhhhhhh...eeeeeee...hhhhhh...hhhhh....hhhhhhhhhhh.........eeeee.hhhhhhhhhhhhhhh....eeeeee......hhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TPP_ENZYMES         ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3oe1 B   2 SYTVGTYLAERLVQIGLKHHFAVAGDYNLVLLDNLLLNKNMEQVYCCNELNCGFSAEGYARAKGAAAAVVTYSVGALSAFDAIGGAYAENLPVILISGAPNNNDHAAGHVLHHALGKTDYHYQLEMAKNITAAAEAIYTPEEAPAKIDHVIKTALREKKPVYLEIACNIASMPCAAPGPASALFNDEASDEASLNAAVEETLKFIANRDKVAVLVGSKLRAAGAEEAAVKFADALGGAVATMAAAKSFFPEENPHYIGTSWGEVSYPGVEKTMKEADAVIALAPVFNDYSTTGWTDIPDPKKLVLAEPRSVVVNGIRFPSVHLKDYLTRLAQKVSKKTGALDFFKSLNA-----AAPADPSAPLVNAEIARQVEALLTPNTTVIAETGDSWFNAQRMKLPNGARVEYEMQWGHIGWSVPAAFGYAVGAPERRNILMVGDGSFQLTAQEVAQMVRLKLPVIIFLINNYGYTIDVMIHDGPYNNIKNWDYAGLMEVFNGNGGYDSGAGKGLKAKTGGELAEAIKVALANTDGPTLIECFIGREDCTEELVKWGKRVAAANSRKPVNK 566
                                    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        |-    |  361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561     
                                                                                                                                                                                                                                                                                                                                                                                      350   356                                                                                                                                                                                                                  


Chain C from PDB  Type:PROTEIN  Length:565
 aligned with PDC_ZYMMO | P06672 from UniProtKB/Swiss-Prot  Length:568

    Alignment length:565
                                    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     
            PDC_ZYMMO     2 SYTVGTYLAERLVQIGLKHHFAVAGDYNLVLLDNLLLNKNMEQVYCCNELNCGFSAEGYARAKGAAAAVVTYSVGALSAFDAIGGAYAENLPVILISGAPNNNDHAAGHVLHHALGKTDYHYQLEMAKNITAAAEAIYTPEEAPAKIDHVIKTALREKKPVYLEIACNIASMPCAAPGPASALFNDEASDEASLNAAVEETLKFIANRDKVAVLVGSKLRAAGAEEAAVKFADALGGAVATMAAAKSFFPEENPHYIGTSWGEVSYPGVEKTMKEADAVIALAPVFNDYSTTGWTDIPDPKKLVLAEPRSVVVNGIRFPSVHLKDYLTRLAQKVSKKTGALDFFKSLNAGELKKAAPADPSAPLVNAEIARQVEALLTPNTTVIAETGDSWFNAQRMKLPNGARVEYEMQWGHIGWSVPAAFGYAVGAPERRNILMVGDGSFQLTAQEVAQMVRLKLPVIIFLINNYGYTIEVMIHDGPYNNIKNWDYAGLMEVFNGNGGYDSGAGKGLKAKTGGELAEAIKVALANTDGPTLIECFIGREDCTEELVKWGKRVAAANSRKPVNK 566
               SCOP domains d3oe1c1 C:2-187 automated matches                                                                                                                                                         d3oe1c2 C:188-362 automated matches                                                                                                                                            d3oe1c3 C:363-566 automated matches                                                                                                                                                                          SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eehhhhhhhhhhhh...eeee.....hhhhhhhhhh....eeee..hhhhhhhhhhhhhhhhh.eeeee....hhhhhhhhhhhhhhh...eeeeeee.hhhhh...............hhhhhhhhh...eeeee.hhhhhhhhhhhhhhhhhhhh..eeeeee.hhh..ee.ee..hhhhhh....hhhhhhhhhhhhhhhhh....eeeee........hhhhhhhhhhhhh.eeeee.hhh.........eeeeehhhhh..hhhhhhhhh.eeeee....................eeee...eeee..eeee..hhhhhhhhhhh.....hhhhhhhhhh.................hhhhhhhhhhhh....eeeee..hhhhhhhhh.......eeee........hhhhhhhhhhhhh...eeeeeeehhhhhhhh.hhhhhhhh....eeeeee...hhhhhhhhhhhhhh....hhhhhhhhhhh.........eeeee.hhhhhhhhhhhhhhh....eeeeee......hhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TPP_ENZYMES         ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3oe1 C   2 SYTVGTYLAERLVQIGLKHHFAVAGDYNLVLLDNLLLNKNMEQVYCCNELNCGFSAEGYARAKGAAAAVVTYSVGALSAFDAIGGAYAENLPVILISGAPNNNDHAAGHVLHHALGKTDYHYQLEMAKNITAAAEAIYTPEEAPAKIDHVIKTALREKKPVYLEIACNIASMPCAAPGPASALFNDEASDEASLNAAVEETLKFIANRDKVAVLVGSKLRAAGAEEAAVKFADALGGAVATMAAAKSFFPEENPHYIGTSWGEVSYPGVEKTMKEADAVIALAPVFNDYSTTGWTDIPDPKKLVLAEPRSVVVNGIRFPSVHLKDYLTRLAQKVSKKTGALDFFKSLNAGELKKAAPADPSAPLVNAEIARQVEALLTPNTTVIAETGDSWFNAQRMKLPNGARVEYEMQWGHIGWSVPAAFGYAVGAPERRNILMVGDGSFQLTAQEVAQMVRLKLPVIIFLINNYGYTIDVMIHDGPYNNIKNWDYAGLMEVFNGNGGYDSGAGKGLKAKTGGELAEAIKVALANTDGPTLIECFIGREDCTEELVKWGKRVAAANSRKPVNK 566
                                    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     


Chain D from PDB  Type:PROTEIN  Length:555
 aligned with PDC_ZYMMO | P06672 from UniProtKB/Swiss-Prot  Length:568

    Alignment length:565
                                    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     
            PDC_ZYMMO     2 SYTVGTYLAERLVQIGLKHHFAVAGDYNLVLLDNLLLNKNMEQVYCCNELNCGFSAEGYARAKGAAAAVVTYSVGALSAFDAIGGAYAENLPVILISGAPNNNDHAAGHVLHHALGKTDYHYQLEMAKNITAAAEAIYTPEEAPAKIDHVIKTALREKKPVYLEIACNIASMPCAAPGPASALFNDEASDEASLNAAVEETLKFIANRDKVAVLVGSKLRAAGAEEAAVKFADALGGAVATMAAAKSFFPEENPHYIGTSWGEVSYPGVEKTMKEADAVIALAPVFNDYSTTGWTDIPDPKKLVLAEPRSVVVNGIRFPSVHLKDYLTRLAQKVSKKTGALDFFKSLNAGELKKAAPADPSAPLVNAEIARQVEALLTPNTTVIAETGDSWFNAQRMKLPNGARVEYEMQWGHIGWSVPAAFGYAVGAPERRNILMVGDGSFQLTAQEVAQMVRLKLPVIIFLINNYGYTIEVMIHDGPYNNIKNWDYAGLMEVFNGNGGYDSGAGKGLKAKTGGELAEAIKVALANTDGPTLIECFIGREDCTEELVKWGKRVAAANSRKPVNK 566
               SCOP domains d3oe1d1 D:2-187 automated matches                                                                                                                                                         d3oe1d2 D:188-362 automated matches                                                                                                                                            d3oe1d3 D:363-566 automated matches                                                                                                                                                                          SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -TPP_enzyme_N-3oe1D09 D:3-179                                                                                                                                                     -------------------TPP_enzyme_M-3oe1D01 D:199-360                                                                                                                                    --------------------------TPP_enzyme_C-3oe1D05 D:387-537                                                                                                                         ----------------------------- Pfam domains (1)
           Pfam domains (2) -TPP_enzyme_N-3oe1D10 D:3-179                                                                                                                                                     -------------------TPP_enzyme_M-3oe1D02 D:199-360                                                                                                                                    --------------------------TPP_enzyme_C-3oe1D06 D:387-537                                                                                                                         ----------------------------- Pfam domains (2)
           Pfam domains (3) -TPP_enzyme_N-3oe1D11 D:3-179                                                                                                                                                     -------------------TPP_enzyme_M-3oe1D03 D:199-360                                                                                                                                    --------------------------TPP_enzyme_C-3oe1D07 D:387-537                                                                                                                         ----------------------------- Pfam domains (3)
           Pfam domains (4) -TPP_enzyme_N-3oe1D12 D:3-179                                                                                                                                                     -------------------TPP_enzyme_M-3oe1D04 D:199-360                                                                                                                                    --------------------------TPP_enzyme_C-3oe1D08 D:387-537                                                                                                                         ----------------------------- Pfam domains (4)
         Sec.struct. author .eehhhhhhhhhhhh...eeee.....hhhhhhhhhh....eeee..hhhhhhhhhhhhhhhhh.eeeee....hhhhhhhhhhhhhhh...eeeeeee.hhhhh...............hhhhhhhhh...eeeee.hhhhhhhhhhhhhhhhhhhh..eeeeee.hhh..ee.ee..hhhhhh....hhhhhhhhhhhhhhhhh....eeeee........hhhhhhhhhhhhh.eeeee.hhh.........eeeeehhhhh..hhhhhhhhh.eeeee....................eeeee..eeee..eeee..hhhhhhhhhhh.....hhhhhhhhhhh----------......hhhhhhhhhhhh....eeeee..hhhhhhhhh.......eeee........hhhhhhhhhhhhh...eeeeeeehhhhhhhh.hhhhhhhh....eeeeee...hhhhhh...hhhhh.......hhhhhhhh.........eeeee.hhhhhhhhhhhhhhh....eeeeee......hhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TPP_ENZYMES         ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3oe1 D   2 SYTVGTYLAERLVQIGLKHHFAVAGDYNLVLLDNLLLNKNMEQVYCCNELNCGFSAEGYARAKGAAAAVVTYSVGALSAFDAIGGAYAENLPVILISGAPNNNDHAAGHVLHHALGKTDYHYQLEMAKNITAAAEAIYTPEEAPAKIDHVIKTALREKKPVYLEIACNIASMPCAAPGPASALFNDEASDEASLNAAVEETLKFIANRDKVAVLVGSKLRAAGAEEAAVKFADALGGAVATMAAAKSFFPEENPHYIGTSWGEVSYPGVEKTMKEADAVIALAPVFNDYSTTGWTDIPDPKKLVLAEPRSVVVNGIRFPSVHLKDYLTRLAQKVSKKTGALDFFKSLN----------DPSAPLVNAEIARQVEALLTPNTTVIAETGDSWFNAQRMKLPNGARVEYEMQWGHIGWSVPAAFGYAVGAPERRNILMVGDGSFQLTAQEVAQMVRLKLPVIIFLINNYGYTIDVMIHDGPYNNIKNWDYAGLMEVFNGNGGYDSGAGKGLKAKTGGELAEAIKVALANTDGPTLIECFIGREDCTEELVKWGKRVAAANSRKPVNK 566
                                    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       | -       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561     
                                                                                                                                                                                                                                                                                                                                                                                     349        360
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (2, 12)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3OE1)

(-) Pfam Domains  (3, 12)

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

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (PDC_ZYMMO | P06672)
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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 Related Entries

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

UniProtKB/Swiss-Prot
        PDC_ZYMMO | P06672: 1zpd 2wva 2wvg 2wvh 4zp1

(-) Related Entries Specified in the PDB File

1zpd PYRUVATE DECARBOXYLASE FROM ZYMOMONAS MOBILIS