Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Asym. Unit - sites
(-)Biological Unit 1
(-)Biol. Unit 1 - sites
(-)Biological Unit 2
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Asym. Unit - sites
Asym. Unit - sites  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biol. Unit 1 - sites
Biol. Unit 1 - sites  (Jmol Viewer)
Image Biological Unit 2
Biological Unit 2  (Jmol Viewer)

(-) Description

Title :  THE CRYSTAL STRUCTURE OF PYRUVATE DEHYDROGENASE E1(D180N, E183Q) BOUND TO THE PERIPHERAL SUBUNIT BINDING DOMAIN OF E2
 
Authors :  R. A. W. Frank, J. V. Pratap, X. Y. Pei, R. N. Perham, B. F. Luisi
Date :  16 Sep 04  (Deposition) - 02 Nov 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H,I,J
Biol. Unit 1:  A,B,C,D,I  (1x)
Biol. Unit 2:  E,F,G,H,J  (1x)
Keywords :  Pyruvate Dehydrogenase, Dihydrolipoyl, Acetyl Transferase, Multienzyme Complex, Oxidoreductase, Transferase, Catalysis, Slinky (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. A. W. Frank, C. M. Titman, J. V. Pratap, B. F. Luisi, R. N. Perham
A Molecular Switch And Proton-Wire Synchronize The Active Sites In Thiamine-Dependent Enzymes
Science V. 306 872 2004
PubMed-ID: 15514159  |  Reference-DOI: 10.1126/SCIENCE.1101030
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PYRUVATE DEHYDROGENASE E1 COMPONENT, ALPHA SUBUNIT
    Chains: A, C, E, G
    EC Number: 1.2.4.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Mutation: YES
    Organism Scientific: GEOBACILLUS STEAROTHERMOPHILUS
    Organism Taxid: 1422
 
Molecule 2 - PYRUVATE DEHYDROGENASE E1 COMPONENT, BETA SUBUNIT
    Chains: B, D, F, H
    EC Number: 1.2.4.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: GEOBACILLUS STEAROTHERMOPHILUS
    Organism Taxid: 1422
 
Molecule 3 - DIHYDROLIPOYLLYSINE-RESIDUE ACETYLTRANSFERASE COMPONENT OF PYRUVATE
    Chains: I, J
    EC Number: 2.3.1.12
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: PERIPHERAL SUBUNIT BINDING DOMAIN (PSBD), RESIDUES 127-169
    Organism Scientific: GEOBACILLUS STEAROTHERMOPHILUS
    Organism Taxid: 1422
    Synonym: E2, DIHYDROLIPOAMIDE ACETYLTRANSFERASE COMPONENT OF PYRUVATE DEHYDROGENASE COMPLEX

 Structural Features

(-) Chains, Units

  12345678910
Asymmetric Unit : ABCDEFGHIJ
Biological Unit 1 (1x): ABCD    I 
Biological Unit 2 (1x):     EFGH J

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 8)
No.NameCountTypeFull Name
1MG4Ligand/IonMAGNESIUM ION
2TDP4Ligand/IonTHIAMIN DIPHOSPHATE
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
2TDP2Ligand/IonTHIAMIN DIPHOSPHATE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
2TDP2Ligand/IonTHIAMIN DIPHOSPHATE

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:173 , ASN A:202 , PHE A:204 , TDP A:1370BINDING SITE FOR RESIDUE MG A1368
2AC2SOFTWAREASP C:173 , ASN C:202 , PHE C:204 , TDP C:1370 , HOH C:2095BINDING SITE FOR RESIDUE MG C1368
3AC3SOFTWAREASP E:173 , GLN E:200 , ASN E:202 , TDP E:1370BINDING SITE FOR RESIDUE MG E1368
4AC4SOFTWAREASP G:173 , ASN G:202 , TDP G:1370BINDING SITE FOR RESIDUE MG G1368
5AC5SOFTWARETYR A:102 , ARG A:103 , ILE A:142 , ILE A:144 , GLY A:172 , ASP A:173 , GLY A:174 , GLY A:175 , GLN A:178 , ASN A:202 , PHE A:204 , ALA A:205 , ILE A:206 , MG A:1368 , HOH A:2096 , GLU D:28 , LEU D:57 , GLU D:59 , GLN D:81 , PHE D:85BINDING SITE FOR RESIDUE TDP A1370
6AC6SOFTWAREGLU B:28 , LEU B:57 , GLU B:59 , GLN B:81 , PHE B:85 , TYR C:102 , ARG C:103 , ILE C:142 , ILE C:144 , GLY C:172 , ASP C:173 , GLY C:174 , GLY C:175 , GLN C:178 , ASN C:202 , PHE C:204 , ALA C:205 , ILE C:206 , ARG C:267 , MG C:1368 , HOH C:2095 , HOH C:2167 , HOH C:2168BINDING SITE FOR RESIDUE TDP C1370
7AC7SOFTWARETYR E:102 , ARG E:103 , ILE E:144 , GLY E:172 , ASP E:173 , GLY E:174 , GLY E:175 , ASN E:202 , MG E:1368 , GLU H:28 , GLU H:59 , PHE H:85BINDING SITE FOR RESIDUE TDP E1370
8AC8SOFTWAREGLU F:28 , TYR G:102 , ARG G:103 , ILE G:142 , ILE G:143 , ILE G:144 , GLY G:172 , ASP G:173 , GLY G:174 , GLY G:175 , ASN G:202 , MG G:1368BINDING SITE FOR RESIDUE TDP G1370

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1W88)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Gln B:239 -Pro B:240
2Gln D:239 -Pro D:240
3Gln F:239 -Pro F:240
4Gln H:239 -Pro H:240

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1W88)

(-) PROSITE Motifs  (1, 2)

Asymmetric Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PSBDPS51826 Peripheral subunit-binding (PSBD) domain profile.ODP2_GEOSE130-167
 		  2I:130-167
J:130-167
Biological Unit 1 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PSBDPS51826 Peripheral subunit-binding (PSBD) domain profile.ODP2_GEOSE130-167
 		  1I:130-167
-
Biological Unit 2 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PSBDPS51826 Peripheral subunit-binding (PSBD) domain profile.ODP2_GEOSE130-167
 		  1-
J:130-167

(-) Exons   (0, 0)

(no "Exon" information available for 1W88)

(-) 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:341
 aligned with ODPA_GEOSE | P21873 from UniProtKB/Swiss-Prot  Length:369

    Alignment length:364
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365    
           ODPA_GEOSE     6 FQFPFAEQLEKVAEQFPTFQILNEEGEVVNEEAMPELSDEQLKELMRRMVYTRILDQRSISLNRQGRLGFYAPTAGQEASQIASHFALEKEDFILPGYRDVPQIIWHGLPLYQAFLFSRGHFHGNQIPEGVNVLPPQIIIGAQYIQAAGVALGLKMRGKKAVAITYTGDGGTSQGDFYEGINFAGAFKAPAIFVVQNNRFAISTPVEKQTVAKTLAQKAVAAGIPGIQVDGMDPLAVYAAVKAARERAINGEGPTLIETLCFRYGPHTMSGDDPTRYRSKELENEWAKKDPLVRFRKFLEAKGLWSEEEENNVIEQAKEEIKEAIKKADETPKQKVTDLISIMFEELPFNLKEQYEIYKEKESK 369
               SCOP domains d1w88a_ A: Pyruvate dehydrogenase E1-alpha, PdhA                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains 1w88A00 A:5-368  [code=3.40.50.970, no name defined]                                                                                                                                                                                                                                                                                                                         CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh...ee..........hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhh......eee....hhhhhhhh..hhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhh...eeeeeee..ee..eehhhhh....hhhhhhhh...eeeee..hhhhhhhhhhhhhhhhhh....eeeeee....-----------------------..hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhh.....hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1w88 A   5 FQFPFAEQLEKVAEQFPTFQILNEEGEVVNEEAMPELSDEQLKELMRRMVYTRILDQRSISLNRQGRLGFYAPTAGQEASQIASHFALEKEDFILPGYRDVPQIIWHGLPLYQAFLFSRGHFHGNQIPEGVNVLPPQIIIGAQYIQAAGVALGLKMRGKKAVAITYTGDGGTSQGNFYQGINFAGAFKAPAIFVVQNNRFAISTPVEKQTVAKTLAQKAVAAGIPGIQVDGMDPLAVYAAVKAARERAINGEGPTLIETLCFRY-----------------------KKDPLVRFRKFLEAKGLWSEEEENNVIEQAKEEIKEAIKKADETPKQKVTDLISIMFEELPFNLKEQYEIYKEKESK 368
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264   |     -         -       294       304       314       324       334       344       354       364    
                                                                                                                                                                                                                                                                                                 268                     292                                                                            


Chain B from PDB  Type:PROTEIN  Length:324
 aligned with ODPB_GEOSE | P21874 from UniProtKB/Swiss-Prot  Length:325

    Alignment length:324
                                    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    
           ODPB_GEOSE     2 AQMTMVQAITDALRIELKNDPNVLIFGEDVGVNGGVFRATEGLQAEFGEDRVFDTPLAESGIGGLAIGLALQGFRPVPEIQFFGFVYEVMDSICGQMARIRYRTGGRYHMPITIRSPFGGGVHTPELHSDSLEGLVAQQPGLKVVIPSTPYDAKGLLISAIRDNDPVIFLEHLKLYRSFRQEVPEGEYTIPIGKADIKREGKDITIIAYGAMVHESLKAAAELEKEGISAEVVDLRTVQPLDIETIIGSVEKTGRAIVVQEAQRQAGIAANVVAEINERAILSLEAPVLRVAAPDTVYPFAQAESVWLPNFKDVIETAKKVMNF 325
               SCOP domains d1w88b1 B:1-192 Pyruvate dehydrogenase E1-beta, PdhB, N-terminal domain                                                                                                                         d1w88b2 B:193-324 Pyruvate dehydrogenase E1-beta, PdhB, C-terminal domain                                                            SCOP domains
               CATH domains 1w88B01 B:1-191  [code=3.40.50.970, no name defined]                                                                                                                                           1w88B02 B:192-324  [code=3.40.50.920, no name defined]                                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeehhhhhhhhhhhhhhhh..eeeee..............hhhhhhh...eee...hhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhhhhhhhhhh........eeeeee.............hhhhhh.....eee...hhhhhhhhhhhhhhh...eeeeee.hhhh..eee.............eeee....eeeee..hhhhhhhhhhhhhhh....eeeee..eee..hhhhhhhhhhhhh.eeeeeeee....hhhhhhhhhhhhhhhhh....eeeee......hhhhhhhhh.hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1w88 B   1 AQMTMVQAITDALRIELKNDPNVLIFGEDVGVNGGVFRATEGLQAEFGEDRVFDTPLAESGIGGLAIGLALQGFRPVPEIQFFGFVYEVMDSICGQMARIRYRTGGRYHMPITIRSPFGGGVHTPELHSDSLEGLVAQQPGLKVVIPSTPYDAKGLLISAIRDNDPVIFLEHLKLYRSFRQEVPEGEYTIPIGKADIKREGKDITIIAYGAMVHESLKAAAELEKEGISAEVVDLRTVQPLDIETIIGSVEKTGRAIVVQEAQRQAGIAANVVAEINERAILSLEAPVLRVAAPDTVYPFAQAESVWLPNFKDVIETAKKVMNF 324
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320    


Chain C from PDB  Type:PROTEIN  Length:343
 aligned with ODPA_GEOSE | P21873 from UniProtKB/Swiss-Prot  Length:369

    Alignment length:364
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365    
           ODPA_GEOSE     6 FQFPFAEQLEKVAEQFPTFQILNEEGEVVNEEAMPELSDEQLKELMRRMVYTRILDQRSISLNRQGRLGFYAPTAGQEASQIASHFALEKEDFILPGYRDVPQIIWHGLPLYQAFLFSRGHFHGNQIPEGVNVLPPQIIIGAQYIQAAGVALGLKMRGKKAVAITYTGDGGTSQGDFYEGINFAGAFKAPAIFVVQNNRFAISTPVEKQTVAKTLAQKAVAAGIPGIQVDGMDPLAVYAAVKAARERAINGEGPTLIETLCFRYGPHTMSGDDPTRYRSKELENEWAKKDPLVRFRKFLEAKGLWSEEEENNVIEQAKEEIKEAIKKADETPKQKVTDLISIMFEELPFNLKEQYEIYKEKESK 369
               SCOP domains d1w88c_ C: Pyruvate dehydrogenase E1-alpha, PdhA                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains 1w88C00 C:5-368  [code=3.40.50.970, no name defined]                                                                                                                                                                                                                                                                                                                         CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh...ee..................hhhhhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh.....eee....hhhhhhhhh.hhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhh...eeeeeee..ee..eehhhhh....hhhhhhhhh..eeeee..hhhhhhhhhhhhhhhhhh....eeeeee....---------------------....hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhh.....hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1w88 C   5 FQFPFAEQLEKVAEQFPTFQILNEEGEVVNEEAMPELSDEQLKELMRRMVYTRILDQRSISLNRQGRLGFYAPTAGQEASQIASHFALEKEDFILPGYRDVPQIIWHGLPLYQAFLFSRGHFHGNQIPEGVNVLPPQIIIGAQYIQAAGVALGLKMRGKKAVAITYTGDGGTSQGNFYQGINFAGAFKAPAIFVVQNNRFAISTPVEKQTVAKTLAQKAVAAGIPGIQVDGMDPLAVYAAVKAARERAINGEGPTLIETLCFRY---------------------WAKKDPLVRFRKFLEAKGLWSEEEENNVIEQAKEEIKEAIKKADETPKQKVTDLISIMFEELPFNLKEQYEIYKEKESK 368
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264   |     -         -     | 294       304       314       324       334       344       354       364    
                                                                                                                                                                                                                                                                                                 268                   290                                                                              


Chain D from PDB  Type:PROTEIN  Length:324
 aligned with ODPB_GEOSE | P21874 from UniProtKB/Swiss-Prot  Length:325

    Alignment length:324
                                    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    
           ODPB_GEOSE     2 AQMTMVQAITDALRIELKNDPNVLIFGEDVGVNGGVFRATEGLQAEFGEDRVFDTPLAESGIGGLAIGLALQGFRPVPEIQFFGFVYEVMDSICGQMARIRYRTGGRYHMPITIRSPFGGGVHTPELHSDSLEGLVAQQPGLKVVIPSTPYDAKGLLISAIRDNDPVIFLEHLKLYRSFRQEVPEGEYTIPIGKADIKREGKDITIIAYGAMVHESLKAAAELEKEGISAEVVDLRTVQPLDIETIIGSVEKTGRAIVVQEAQRQAGIAANVVAEINERAILSLEAPVLRVAAPDTVYPFAQAESVWLPNFKDVIETAKKVMNF 325
               SCOP domains d1w88d1 D:1-192 Pyruvate dehydrogenase E1-beta, PdhB, N-terminal domain                                                                                                                         d1w88d2 D:193-324 Pyruvate dehydrogenase E1-beta, PdhB, C-terminal domain                                                            SCOP domains
               CATH domains 1w88D01 D:1-191  [code=3.40.50.970, no name defined]                                                                                                                                           1w88D02 D:192-324  [code=3.40.50.920, no name defined]                                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eehhhhhhhhhhhhhhhhh..eeeee..............hhhhhhh...eee...hhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhhhhhhhhhh........eeeeee.............hhhhhh.....eee...hhhhhhhhhhhhhhh...eeeeee.hhh....ee.............eeee....eeeee..hhhhhhhhhhhhhhhh...eeeee..eee..hhhhhhhhhhhhh.eeeeeeee....hhhhhhhhhhhhhhhhh....eeeee......hhhhhhhhh.hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1w88 D   1 AQMTMVQAITDALRIELKNDPNVLIFGEDVGVNGGVFRATEGLQAEFGEDRVFDTPLAESGIGGLAIGLALQGFRPVPEIQFFGFVYEVMDSICGQMARIRYRTGGRYHMPITIRSPFGGGVHTPELHSDSLEGLVAQQPGLKVVIPSTPYDAKGLLISAIRDNDPVIFLEHLKLYRSFRQEVPEGEYTIPIGKADIKREGKDITIIAYGAMVHESLKAAAELEKEGISAEVVDLRTVQPLDIETIIGSVEKTGRAIVVQEAQRQAGIAANVVAEINERAILSLEAPVLRVAAPDTVYPFAQAESVWLPNFKDVIETAKKVMNF 324
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320    


Chain E from PDB  Type:PROTEIN  Length:328
 aligned with ODPA_GEOSE | P21873 from UniProtKB/Swiss-Prot  Length:369

    Alignment length:364
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365    
           ODPA_GEOSE     6 FQFPFAEQLEKVAEQFPTFQILNEEGEVVNEEAMPELSDEQLKELMRRMVYTRILDQRSISLNRQGRLGFYAPTAGQEASQIASHFALEKEDFILPGYRDVPQIIWHGLPLYQAFLFSRGHFHGNQIPEGVNVLPPQIIIGAQYIQAAGVALGLKMRGKKAVAITYTGDGGTSQGDFYEGINFAGAFKAPAIFVVQNNRFAISTPVEKQTVAKTLAQKAVAAGIPGIQVDGMDPLAVYAAVKAARERAINGEGPTLIETLCFRYGPHTMSGDDPTRYRSKELENEWAKKDPLVRFRKFLEAKGLWSEEEENNVIEQAKEEIKEAIKKADETPKQKVTDLISIMFEELPFNLKEQYEIYKEKESK 369
               SCOP domains d1w88e_ E: Pyruvate dehydrogenase E1-alpha, PdhA                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains 1w88E00 E:5-368  [code=3.40.50.970, no name defined]                                                                                                                                                                                                                                                                                                                         CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh.......................hhhhhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh.....eee....hhhhhhhh..hhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhh...eeeeeee....----------...hhhhhhh....eeeee..hhhhhhhhhhhhhhhhhh....eeeeee.--------------------------..hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhh.....hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1w88 E   5 FQFPFAEQLEKVAEQFPTFQILNEEGEVVNEEAMPELSDEQLKELMRRMVYTRILDQRSISLNRQGRLGFYAPTAGQEASQIASHFALEKEDFILPGYRDVPQIIWHGLPLYQAFLFSRGHFHGNQIPEGVNVLPPQIIIGAQYIQAAGVALGLKMRGKKAVAITYTGDGGTSQGNFYQGINFAGAFKAPAIFVVQNNRFA----------AKTLAQKAVAAGIPGIQVDGMDPLAVYAAVKAARERAINGEGPTLIETLC--------------------------KKDPLVRFRKFLEAKGLWSEEEENNVIEQAKEEIKEAIKKADETPKQKVTDLISIMFEELPFNLKEQYEIYKEKESK 368
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204|        - |     224       234       244       254       264|        -         -       294       304       314       324       334       344       354       364    
                                                                                                                                                                                                                                  205        216                                              265                        292                                                                            


Chain F from PDB  Type:PROTEIN  Length:310
 aligned with ODPB_GEOSE | P21874 from UniProtKB/Swiss-Prot  Length:325

    Alignment length:324
                                    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    
           ODPB_GEOSE     2 AQMTMVQAITDALRIELKNDPNVLIFGEDVGVNGGVFRATEGLQAEFGEDRVFDTPLAESGIGGLAIGLALQGFRPVPEIQFFGFVYEVMDSICGQMARIRYRTGGRYHMPITIRSPFGGGVHTPELHSDSLEGLVAQQPGLKVVIPSTPYDAKGLLISAIRDNDPVIFLEHLKLYRSFRQEVPEGEYTIPIGKADIKREGKDITIIAYGAMVHESLKAAAELEKEGISAEVVDLRTVQPLDIETIIGSVEKTGRAIVVQEAQRQAGIAANVVAEINERAILSLEAPVLRVAAPDTVYPFAQAESVWLPNFKDVIETAKKVMNF 325
               SCOP domains d1w88f1 F:1-192 Pyruvate dehydrogenase E1-beta, PdhB, N-terminal domain                                                                                                                         d1w88f2 F:193-324 Pyruvate dehydrogenase E1-beta, PdhB, C-terminal domain                                                            SCOP domains
               CATH domains 1w88F01 F:1-191  [code=3.40.50.970, no name defined]                                                                                                                                           1w88F02 F:192-324  [code=3.40.50.920, no name defined]                                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eehhhhhhhhhhhhhhhhh..eeeee..............hhhhhhh...eee...hhhhhhhhhhhhhhh..eeee..------.hhhhhhh.hhhhhhhhh........eeeeee.--------....hhhhhh.....eee...hhhhhhhhhhhhhhh...eeeeee........ee.............eeee....eeeee..hhhhhhhhhhhhhhh....eeeee..eee..hhhhhhhhhhhhh.eeeeeeee....hhhhhhhhhhhhhhhhh....eeeee......hhhhhhhhh.hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1w88 F   1 AQMTMVQAITDALRIELKNDPNVLIFGEDVGVNGGVFRATEGLQAEFGEDRVFDTPLAESGIGGLAIGLALQGFRPVPEI------YEVMDSICGQMARIRYRTGGRYHMPITIRSPFG--------HSDSLEGLVAQQPGLKVVIPSTPYDAKGLLISAIRDNDPVIFLEHLKLYRSFRQEVPEGEYTIPIGKADIKREGKDITIIAYGAMVHESLKAAAELEKEGISAEVVDLRTVQPLDIETIIGSVEKTGRAIVVQEAQRQAGIAANVVAEINERAILSLEAPVLRVAAPDTVYPFAQAESVWLPNFKDVIETAKKVMNF 324
                                    10        20        30        40        50        60        70        80      | 90       100       110        |-       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320    
                                                                                                          80     87                             119      128                                                                                                                                                                                                    


Chain G from PDB  Type:PROTEIN  Length:331
 aligned with ODPA_GEOSE | P21873 from UniProtKB/Swiss-Prot  Length:369

    Alignment length:364
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365    
           ODPA_GEOSE     6 FQFPFAEQLEKVAEQFPTFQILNEEGEVVNEEAMPELSDEQLKELMRRMVYTRILDQRSISLNRQGRLGFYAPTAGQEASQIASHFALEKEDFILPGYRDVPQIIWHGLPLYQAFLFSRGHFHGNQIPEGVNVLPPQIIIGAQYIQAAGVALGLKMRGKKAVAITYTGDGGTSQGDFYEGINFAGAFKAPAIFVVQNNRFAISTPVEKQTVAKTLAQKAVAAGIPGIQVDGMDPLAVYAAVKAARERAINGEGPTLIETLCFRYGPHTMSGDDPTRYRSKELENEWAKKDPLVRFRKFLEAKGLWSEEEENNVIEQAKEEIKEAIKKADETPKQKVTDLISIMFEELPFNLKEQYEIYKEKESK 369
               SCOP domains d1w88g_ G: Pyruvate dehydrogenase E1-alpha, PdhA                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains 1w88G00 G:5-368  [code=3.40.50.970, no name defined]                                                                                                                                                                                                                                                                                                                         CATH domains
           Pfam domains (1) ---------------------------------------------E1_dh-1w88G01 G:50-341                                                                                                                                                                                                                                                                              --------------------------- Pfam domains (1)
           Pfam domains (2) ---------------------------------------------E1_dh-1w88G02 G:50-341                                                                                                                                                                                                                                                                              --------------------------- Pfam domains (2)
           Pfam domains (3) ---------------------------------------------E1_dh-1w88G03 G:50-341                                                                                                                                                                                                                                                                              --------------------------- Pfam domains (3)
           Pfam domains (4) ---------------------------------------------E1_dh-1w88G04 G:50-341                                                                                                                                                                                                                                                                              --------------------------- Pfam domains (4)
         Sec.struct. author ...hhhhhhhhhhh...ee..................hhhhhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh.....eee....hhhhhhhh..hhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhh...eeeeeee....-------......hhhhhhhhh..eeeee..hhhhhhhhhhhhhhhhhh....eeeeee.--------------------------..hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhh.....hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1w88 G   5 FQFPFAEQLEKVAEQFPTFQILNEEGEVVNEEAMPELSDEQLKELMRRMVYTRILDQRSISLNRQGRLGFYAPTAGQEASQIASHFALEKEDFILPGYRDVPQIIWHGLPLYQAFLFSRGHFHGNQIPEGVNVLPPQIIIGAQYIQAAGVALGLKMRGKKAVAITYTGDGGTSQGNFYQGINFAGAFKAPAIFVVQNNRFA-------QTVAKTLAQKAVAAGIPGIQVDGMDPLAVYAAVKAARERAINGEGPTLIETLC--------------------------KKDPLVRFRKFLEAKGLWSEEEENNVIEQAKEEIKEAIKKADETPKQKVTDLISIMFEELPFNLKEQYEIYKEKESK 368
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204|      214       224       234       244       254       264|        -         -       294       304       314       324       334       344       354       364    
                                                                                                                                                                                                                                  205     213                                                 265                        292                                                                            


Chain H from PDB  Type:PROTEIN  Length:317
 aligned with ODPB_GEOSE | P21874 from UniProtKB/Swiss-Prot  Length:325

    Alignment length:324
                                    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    
           ODPB_GEOSE     2 AQMTMVQAITDALRIELKNDPNVLIFGEDVGVNGGVFRATEGLQAEFGEDRVFDTPLAESGIGGLAIGLALQGFRPVPEIQFFGFVYEVMDSICGQMARIRYRTGGRYHMPITIRSPFGGGVHTPELHSDSLEGLVAQQPGLKVVIPSTPYDAKGLLISAIRDNDPVIFLEHLKLYRSFRQEVPEGEYTIPIGKADIKREGKDITIIAYGAMVHESLKAAAELEKEGISAEVVDLRTVQPLDIETIIGSVEKTGRAIVVQEAQRQAGIAANVVAEINERAILSLEAPVLRVAAPDTVYPFAQAESVWLPNFKDVIETAKKVMNF 325
               SCOP domains d1w88h1 H:1-192 Pyruvate dehydrogenase E1-beta, PdhB, N-terminal domain                                                                                                                         d1w88h2 H:193-324 Pyruvate dehydrogenase E1-beta, PdhB, C-terminal domain                                                            SCOP domains
               CATH domains 1w88H01 H:1-191  [code=3.40.50.970, no name defined]                                                                                                                                           1w88H02 H:192-324  [code=3.40.50.920, no name defined]                                                                                CATH domains
           Pfam domains (1) Transket_pyr-1w88H01 H:1-179                                                                                                                                                       -------------Transketolase_C-1w88H05 H:193-315                                                                                          --------- Pfam domains (1)
           Pfam domains (2) Transket_pyr-1w88H02 H:1-179                                                                                                                                                       -------------Transketolase_C-1w88H06 H:193-315                                                                                          --------- Pfam domains (2)
           Pfam domains (3) Transket_pyr-1w88H03 H:1-179                                                                                                                                                       -------------Transketolase_C-1w88H07 H:193-315                                                                                          --------- Pfam domains (3)
           Pfam domains (4) Transket_pyr-1w88H04 H:1-179                                                                                                                                                       -------------Transketolase_C-1w88H08 H:193-315                                                                                          --------- Pfam domains (4)
         Sec.struct. author .eehhhhhhhhhhhhhhhhh..eeeee..............hhhhhhh...eee...hhhhhhhhhhhhhhh..eeee.........hhhhhhh.hhhhhhhhh........eeeeee...-------...hhhhhh.....eee...hhhhhhhhhhhhhhh...eeeeee.hhh....ee.............eeee....eeeee..hhhhhhhhhhhhhhh....eeeee..eee..hhhhhhhhhhhhh.eeeeeeee....hhhhhhhhhhhhhhhhh....eeeee......hhhhhhhhh.hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1w88 H   1 AQMTMVQAITDALRIELKNDPNVLIFGEDVGVNGGVFRATEGLQAEFGEDRVFDTPLAESGIGGLAIGLALQGFRPVPEIQFFGFVYEVMDSICGQMARIRYRTGGRYHMPITIRSPFGGG-------SDSLEGLVAQQPGLKVVIPSTPYDAKGLLISAIRDNDPVIFLEHLKLYRSFRQEVPEGEYTIPIGKADIKREGKDITIIAYGAMVHESLKAAAELEKEGISAEVVDLRTVQPLDIETIIGSVEKTGRAIVVQEAQRQAGIAANVVAEINERAILSLEAPVLRVAAPDTVYPFAQAESVWLPNFKDVIETAKKVMNF 324
                                    10        20        30        40        50        60        70        80        90       100       110       120|      130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320    
                                                                                                                                                  121     129                                                                                                                                                                                                   


Chain I from PDB  Type:PROTEIN  Length:40
 aligned with ODP2_GEOSE | P11961 from UniProtKB/Swiss-Prot  Length:428

    Alignment length:40
                                   137       147       157       167
           ODP2_GEOSE   128 RVIAMPSVRKYAREKGVDIRLVQGTGKNGRVLKEDIDAFL 167
               SCOP domains d1w88i_ I:                               SCOP domains
               CATH domains 1w88I00 I:128-167                        CATH domains
               Pfam domains ---------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhh..........hhhhh.hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------- SAPs(SNPs)
                    PROSITE --PSBD  PDB: I:130-167 UniProt: 130-167  PROSITE
                 Transcript ---------------------------------------- Transcript
                 1w88 I 128 RVIAMPSVRKYAREKGVDIRLVQGTGKNGRVLKEDIDAFL 167
                                   137       147       157       167


Chain J from PDB  Type:PROTEIN  Length:43
 aligned with ODP2_GEOSE | P11961 from UniProtKB/Swiss-Prot  Length:428

    Alignment length:43
                                   137       147       157       167   
           ODP2_GEOSE   128 RVIAMPSVRKYAREKGVDIRLVQGTGKNGRVLKEDIDAFLAGG 170
               SCOP domains d1w88j_ J:                                  SCOP domains
               CATH domains 1w88J00 J:128-170                           CATH domains
           Pfam domains (1) E3_binding-1w88J01 J:128-165          ----- Pfam domains (1)
           Pfam domains (2) E3_binding-1w88J02 J:128-165          ----- Pfam domains (2)
         Sec.struct. author ....hhhhhhhhhhh..........hhhhh.hhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------- SAPs(SNPs)
                    PROSITE --PSBD  PDB: J:130-167 UniProt: 130-167 --- PROSITE
                 Transcript ------------------------------------------- Transcript
                 1w88 J 128 RVIAMPSVRKYAREKGVDIRLVQGTGKNGRVLKEDIDAFLAGG 170
                                   137       147       157       167
   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  (4, 14)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (3, 14)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Few Secondary Structures (1120)

(-) Pfam Domains  (4, 14)

Asymmetric Unit
(-)
Clan: THDP-binding (106)
(-)
Clan: no clan defined [family: E3_binding] (14)
(-)
Clan: no clan defined [family: Transketolase_C] (40)

(-) Gene Ontology  (10, 17)

Asymmetric Unit(hide GO term definitions)
Chain A,C,E,G   (ODPA_GEOSE | P21873)
molecular function
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0016624    oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor    Catalysis of an oxidation-reduction (redox) reaction in which an aldehyde or ketone (oxo) group acts as a hydrogen or electron donor and reduces a disulfide.
    GO:0004739    pyruvate dehydrogenase (acetyl-transferring) activity    Catalysis of the reaction: pyruvate + lipoamide = S-acetyldihydrolipoamide + CO2.
biological process
    GO:0006096    glycolytic process    The chemical reactions and pathways resulting in the breakdown of a carbohydrate into pyruvate, with the concomitant production of a small amount of ATP and the reduction of NAD(P) to NAD(P)H. Glycolysis begins with the metabolism of a carbohydrate to generate products that can enter the pathway and ends with the production of pyruvate. Pyruvate may be converted to acetyl-coenzyme A, ethanol, lactate, or other small molecules.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.

Chain B,D,F,H   (ODPB_GEOSE | P21874)
molecular function
    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:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0004739    pyruvate dehydrogenase (acetyl-transferring) activity    Catalysis of the reaction: pyruvate + lipoamide = S-acetyldihydrolipoamide + CO2.
biological process
    GO:0006096    glycolytic process    The chemical reactions and pathways resulting in the breakdown of a carbohydrate into pyruvate, with the concomitant production of a small amount of ATP and the reduction of NAD(P) to NAD(P)H. Glycolysis begins with the metabolism of a carbohydrate to generate products that can enter the pathway and ends with the production of pyruvate. Pyruvate may be converted to acetyl-coenzyme A, ethanol, lactate, or other small molecules.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.

Chain I,J   (ODP2_GEOSE | P11961)
molecular function
    GO:0004742    dihydrolipoyllysine-residue acetyltransferase activity    Catalysis of the reaction: acetyl-CoA + dihydrolipoamide = CoA + S-acetyldihydrolipoamide.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0016746    transferase activity, transferring acyl groups    Catalysis of the transfer of an acyl group from one compound (donor) to another (acceptor).
biological process
    GO:0006096    glycolytic process    The chemical reactions and pathways resulting in the breakdown of a carbohydrate into pyruvate, with the concomitant production of a small amount of ATP and the reduction of NAD(P) to NAD(P)H. Glycolysis begins with the metabolism of a carbohydrate to generate products that can enter the pathway and ends with the production of pyruvate. Pyruvate may be converted to acetyl-coenzyme A, ethanol, lactate, or other small molecules.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.

 Visualization

(-) Interactive Views

Asymmetric Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    MG  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    TDP  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
    AC6  [ RasMol ]  +environment [ RasMol ]
    AC7  [ RasMol ]  +environment [ RasMol ]
    AC8  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Gln B:239 - Pro B:240   [ RasMol ]  
    Gln D:239 - Pro D:240   [ RasMol ]  
    Gln F:239 - Pro F:240   [ RasMol ]  
    Gln H:239 - Pro H:240   [ RasMol ]  
 
Biological Units
  Complete Structure
    Biological Unit 1  [ Jena3D ]
    Biological Unit 2  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym. Unit PNG format | Asym. Unit - sites PNG format | Biol. Unit 1 PNG format | Biol. Unit 1 - sites PNG format | Biol. Unit 2 PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  1w88
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  ODP2_GEOSE | P11961
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
  ODPA_GEOSE | P21873
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
  ODPB_GEOSE | P21874
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  1.2.4.1
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
  2.3.1.12
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  ODP2_GEOSE | P11961
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)
  ODPA_GEOSE | P21873
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)
  ODPB_GEOSE | P21874
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        ODP2_GEOSE | P11961: 1b5s 1ebd 1lab 1lac 1w3d 1w4e 1w4f 1w4g 1w4h 1w85 2pdd 2pde 3duf 3dv0 3dva
        ODPA_GEOSE | P21873: 1w85 3duf 3dv0 3dva
        ODPB_GEOSE | P21874: 1w85 3duf 3dv0 3dva

(-) Related Entries Specified in the PDB File

1b5s DIHYDROLIPOYL TRANSACETYLASE CATALYTIC DOMAIN (RESIDUES 184-425) FROM BACILLUS STEAROTHERMOPHILUS
1ebd DIHYDROLIPOAMIDE DEHYDROGENASE COMPLEXED WITH THE BINDING DOMAIN OF THE DIHYDROLIPOAMIDE ACETYLASE
1lab DIHYDROLIPOAMIDE ACETYLTRANSFERASE (E2P) SUBUNIT OF THE PYRUVATE DEHYDROGENASE (PDH) MULTIENZYME COMPLEX (LIPOYLATED DOMAIN, RESIDUES 1 - 80) (NMR, 11 STRUCTURES)
1lac DIHYDROLIPOAMIDE ACETYLTRANSFERASE (E2P) SUBUNIT OF THE PYRUVATE DEHYDROGENASE (PDH) MULTIENZYME COMPLEX (LIPOYLATED DOMAIN, RESIDUES 1 - 80) (NMR, AVERAGE STRUCTURE)
1w3d NMR STRUCTURE OF THE PERIPHERAL-SUBUNIT BINDING DOMAIN OF BACILLUS STEAROTHERMOPHILUS E2P
1w4e PERIPHERAL-SUBUNIT BINDING DOMAINS FROM MESOPHILIC, THERMOPHILIC, AND HYPERTHERMOPHILIC BACTERIA FOLD BY ULTRAFAST, APPARENTLY TWO- STATE TRANSITIONS
1w4f PERIPHERAL-SUBUNIT FROM MESOPHILIC, THERMOPHILIC AND HYPERTHERMOPHILIC BACTERIA FOLD BY ULTRAFAST, APPARENTLY TWO-STATE TRANSITIONS
1w4g PERIPHERAL-SUBUNIT BINDING DOMAINS FROM MESOPHILIC, THERMOPHILIC, AND HYPERTHERMOPHILIC BACTERIA FOLD BY ULTRAFAST, APPARENTLY TWO- STATE FOLDING TRANSITIONS
1w4h PERIPHERAL-SUBUNIT FROM MESOPHILIC, THERMOPHILIC AND HYPERTHERMOPHILIC BACTERIA FOLD BY ULTRAFAST, APPARENTLY TWO-STATE TRANSITIONS
1w85 THE CRYSTAL STRUCTURE OF PYRUVATE DEYDROGENASE E1 BOUND TO THE PERIPHERAL SUBUNIT BINDING DOMAIN OF E2
2pdd DIHYDROLIPOAMIDE ACETYLTRANSFERASE (E2P) SUBUNIT OF THE PYRUVATE DEHYDROGENASE (PDH) MULTIENZYME COMPLEX (PYRUVATE DECARBOXYLASE (E1P) / DIHYDROLIPOAMIDE DEHYDROGENASE (E3) 43 RESIDUE BINDING DOMAIN) (NMR, 35 STRUCTURES)
2pde DIHYDROLIPOAMIDE ACETYLTRANSFERASE (E2P) SUBUNIT OF THE PYRUVATE DEHYDROGENASE (PDH) MULTIENZYME COMPLEX (PYRUVATE DECARBOXYLASE (E1P) / DIHYDROLIPOAMIDE DEHYDROGENASE (E3) 43 RESIDUE BINDING DOMAIN) (NMR, AVERAGE STRUCTURE)