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(-) Description

Title :  CRYSTAL STRUCTURE OF (R)-CARBONYL REDUCTASE FROM CANDIDA PARAPSILOSIS IN COMPLEX WITH (R)-1-PHENYL-1,2-ETHANEDIOL
 
Authors :  S. S. Wang, Y. Nie, Y. Xu, R. Z. Zhang, C. H. Huang, H. C. Chan, R. T. Guo, R. X
Date :  09 Nov 13  (Deposition) - 16 Jul 14  (Release) - 16 Jul 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Alcohol Dehydrogenase, Carbonyl Reductase, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. S. Wang, Y. Nie, Y. Xu, R. Z. Zhang, T. P. Ko, C. H. Huang, H. C. Chan, R. T. Guo, R. Xiao
Unconserved Substrate-Binding Sites Direct The Stereoselectivity Of Medium-Chain Alcohol Dehydrogenase
Chem. Commun. (Camb. ) V. 50 7770 2014
PubMed-ID: 24834985  |  Reference-DOI: 10.1039/C4CC01752H

(-) Compounds

Molecule 1 - (R)-SPECIFIC CARBONYL REDUCTASE
    Chains: A, B, C, D
    EC Number: 1.1.1.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET32A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: CPRADH
    Organism Common: YEAST
    Organism Scientific: CANDIDA PARAPSILOSIS
    Organism Taxid: 5480
    Strain: CCTCC M203011
    Synonym: 1-PHENYL-1, 2-ETHANEDIOL DEHYDROGENASE

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 12)

Asymmetric/Biological Unit (2, 12)
No.NameCountTypeFull Name
1FEH4Ligand/Ion(1R)-1-PHENYLETHANE-1,2-DIOL
2ZN8Ligand/IonZINC ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWARESER A:46 , LEU A:119 , ASP A:154 , THR A:158 , TRP A:286 , HOH A:575BINDING SITE FOR RESIDUE FEH A 401
02AC2SOFTWARECYS A:44 , HIS A:65 , GLU A:66 , ASP A:154BINDING SITE FOR RESIDUE ZN A 402
03AC3SOFTWARECYS A:95 , GLY A:96 , CYS A:98 , CYS A:101 , CYS A:109BINDING SITE FOR RESIDUE ZN A 403
04AC4SOFTWARESER B:46 , LEU B:55 , TRP B:116 , LEU B:119 , ASP B:154 , THR B:158 , TRP B:286 , HOH B:527BINDING SITE FOR RESIDUE FEH B 401
05AC5SOFTWARECYS B:44 , HIS B:65 , GLU B:66 , ASP B:154BINDING SITE FOR RESIDUE ZN B 402
06AC6SOFTWARECYS B:95 , GLY B:96 , CYS B:98 , CYS B:101 , CYS B:109BINDING SITE FOR RESIDUE ZN B 403
07AC7SOFTWARESER C:46 , HIS C:65 , ASP C:154 , THR C:158 , TRP C:286 , HOH C:523BINDING SITE FOR RESIDUE FEH C 401
08AC8SOFTWARECYS C:95 , GLY C:96 , CYS C:98 , CYS C:101 , CYS C:109BINDING SITE FOR RESIDUE ZN C 402
09AC9SOFTWARECYS C:44 , HIS C:65 , GLU C:66 , ASP C:154BINDING SITE FOR RESIDUE ZN C 403
10BC1SOFTWARESER D:46 , HIS D:65 , LEU D:119 , ASP D:154 , THR D:158 , PHE D:285 , TRP D:286 , HOH D:517BINDING SITE FOR RESIDUE FEH D 401
11BC2SOFTWARECYS D:44 , HIS D:65 , GLU D:66 , ASP D:154BINDING SITE FOR RESIDUE ZN D 402
12BC3SOFTWARECYS D:95 , GLY D:96 , CYS D:98 , CYS D:101 , CYS D:109BINDING SITE FOR RESIDUE ZN D 403

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3WLF)

(-) Exons   (0, 0)

(no "Exon" information available for 3WLF)

(-) 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:335
 aligned with A1X808_CANPA | A1X808 from UniProtKB/TrEMBL  Length:336

    Alignment length:335
                                    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     
         A1X808_CANPA     2 SIPSSQYGFVFNKQSGLKLRNDLPVHKPKAGQLLLKVDAVGLCHSDLHVIYEGLDCGDNYVMGHEIAGTVAAVGDDVINYKVGDRVACVGPNGCGGCKYCRGAIDNVCKNAFGDWFGLGYDGGYQQYLLVTRPRNLSRIPDNVSADVAAASTDAVLTPYHAIKMAQVSPTSNILLIGAGGLGGNAIQVAKAFGAKVTVLDKKKEARDQAKKLGADAVYETLPESISPGSFSACFDFVSVQATFDVCQKYVEPKGVIMPVGLGAPNLSFNLGDLALREIRILGSFWGTTNDLDDVLKLVSEGKVKPVVRSAKLKELPEYIEKLRNNAYEGRVVFNP 336
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeee...eeeeeeeee........eeeeeeeee.hhhhhhhhhh.......ee...eeeeeeeee...........eeee...............hhhhh......ee..ee......eeee.hhh.eee.....hhhhhhhhh..hhhhhhhhhhh......eeeee....hhhhhhhhhhhh..eeeee..hhhhhhhhhhhh..eee...........eeeeee...hhhhhhhhhhheeeeeeeee......eeeeehhhhhhh..eee.....hhhhhhhhhhhhhh......eeeee..hhhhhhhhhhhh....eeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3wlf A   2 SIPSSQYGFVFNKQSGLKLRNDLPVHKPKAGQLLLKVDAVGLCHSDLHVIYEGLDCGDNYVMGHEIAGTVAAVGDDVINYKVGDRVACVGPNGCGGCKYCRGAIDNVCKNAFGDWFGLGYDGGYQQYLLVTRPRNLSRIPDNVSADVAAASTDAVLTPYHAIKMAQVSPTSNILLIGAGGLGGNAIQVAKAFGAKVTVLDKKKEARDQAKKLGADAVYETLPESISPGSFSACFDFVSVQATFDVCQKYVEPKGVIMPVGLGAPNLSFNLGDLALREIRILGSFWGTTNDLDDVLKLVSEGKVKPVVRSAKLKELPEYIEKLRNNAYEGRVVFNP 336
                                    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     


Chain B from PDB  Type:PROTEIN  Length:334
 aligned with A1X808_CANPA | A1X808 from UniProtKB/TrEMBL  Length:336

    Alignment length:334
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332    
         A1X808_CANPA     3 IPSSQYGFVFNKQSGLKLRNDLPVHKPKAGQLLLKVDAVGLCHSDLHVIYEGLDCGDNYVMGHEIAGTVAAVGDDVINYKVGDRVACVGPNGCGGCKYCRGAIDNVCKNAFGDWFGLGYDGGYQQYLLVTRPRNLSRIPDNVSADVAAASTDAVLTPYHAIKMAQVSPTSNILLIGAGGLGGNAIQVAKAFGAKVTVLDKKKEARDQAKKLGADAVYETLPESISPGSFSACFDFVSVQATFDVCQKYVEPKGVIMPVGLGAPNLSFNLGDLALREIRILGSFWGTTNDLDDVLKLVSEGKVKPVVRSAKLKELPEYIEKLRNNAYEGRVVFNP 336
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee...eeeeeeee.........eeeeeeeeeehhhhhhhhh........ee....eeeeeeee...........eeee...............hhhhh......ee..ee......eeee.hhh.eee.....hhhhhhh....hhhhhhhhhhh......eeeee....hhhhhhhhhhhh..eeeee..hhhhhhhhhhh...eee...........eeeeee...hhhhhhhhhhheeeeeeeee......eeeeehhhhhhh..eee.....hhhhhhhhhhhhhh.......eeee..hhhhhhhhhh.......eeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3wlf B   3 IPSSQYGFVFNKQSGLKLRNDLPVHKPKAGQLLLKVDAVGLCHSDLHVIYEGLDCGDNYVMGHEIAGTVAAVGDDVINYKVGDRVACVGPNGCGGCKYCRGAIDNVCKNAFGDWFGLGYDGGYQQYLLVTRPRNLSRIPDNVSADVAAASTDAVLTPYHAIKMAQVSPTSNILLIGAGGLGGNAIQVAKAFGAKVTVLDKKKEARDQAKKLGADAVYETLPESISPGSFSACFDFVSVQATFDVCQKYVEPKGVIMPVGLGAPNLSFNLGDLALREIRILGSFWGTTNDLDDVLKLVSEGKVKPVVRSAKLKELPEYIEKLRNNAYEGRVVFNP 336
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332    


Chain C from PDB  Type:PROTEIN  Length:333
 aligned with A1X808_CANPA | A1X808 from UniProtKB/TrEMBL  Length:336

    Alignment length:334
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332    
         A1X808_CANPA     3 IPSSQYGFVFNKQSGLKLRNDLPVHKPKAGQLLLKVDAVGLCHSDLHVIYEGLDCGDNYVMGHEIAGTVAAVGDDVINYKVGDRVACVGPNGCGGCKYCRGAIDNVCKNAFGDWFGLGYDGGYQQYLLVTRPRNLSRIPDNVSADVAAASTDAVLTPYHAIKMAQVSPTSNILLIGAGGLGGNAIQVAKAFGAKVTVLDKKKEARDQAKKLGADAVYETLPESISPGSFSACFDFVSVQATFDVCQKYVEPKGVIMPVGLGAPNLSFNLGDLALREIRILGSFWGTTNDLDDVLKLVSEGKVKPVVRSAKLKELPEYIEKLRNNAYEGRVVFNP 336
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee......eeeeeee........eeeeeeee..hhhhhhhhhh.......ee....eeeeeeee...........eeee..........hhhhhhhhhh......ee..ee......eeee.....eee.....hhhhhhh....hhhhhhhhhhh......eeeee.....hhhhhhhhhhh..eeeee..hhhhhhhhhhhh..eee...........eeeeee...hhhhhhhhhhheeeeeeeee......eeeeehhhhhhh..eee.....hhhhhhhhhhhhhh.......eeee..hhhhhhhhhhhh..-..eeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3wlf C   3 IPSSQYGFVFNKQSGLKLRNDLPVHKPKAGQLLLKVDAVGLCHSDLHVIYEGLDCGDNYVMGHEIAGTVAAVGDDVINYKVGDRVACVGPNGCGGCKYCRGAIDNVCKNAFGDWFGLGYDGGYQQYLLVTRPRNLSRIPDNVSADVAAASTDAVLTPYHAIKMAQVSPTSNILLIGAGGLGGNAIQVAKAFGAKVTVLDKKKEARDQAKKLGADAVYETLPESISPGSFSACFDFVSVQATFDVCQKYVEPKGVIMPVGLGAPNLSFNLGDLALREIRILGSFWGTTNDLDDVLKLVSEGKVKPVVRSAKLKELPEYIEKLRNNAY-GRVVFNP 336
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322     | 332    
                                                                                                                                                                                                                                                                                                                                                               328 |      
                                                                                                                                                                                                                                                                                                                                                                 330      


Chain D from PDB  Type:PROTEIN  Length:332
 aligned with A1X808_CANPA | A1X808 from UniProtKB/TrEMBL  Length:336

    Alignment length:334
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332    
         A1X808_CANPA     3 IPSSQYGFVFNKQSGLKLRNDLPVHKPKAGQLLLKVDAVGLCHSDLHVIYEGLDCGDNYVMGHEIAGTVAAVGDDVINYKVGDRVACVGPNGCGGCKYCRGAIDNVCKNAFGDWFGLGYDGGYQQYLLVTRPRNLSRIPDNVSADVAAASTDAVLTPYHAIKMAQVSPTSNILLIGAGGLGGNAIQVAKAFGAKVTVLDKKKEARDQAKKLGADAVYETLPESISPGSFSACFDFVSVQATFDVCQKYVEPKGVIMPVGLGAPNLSFNLGDLALREIRILGSFWGTTNDLDDVLKLVSEGKVKPVVRSAKLKELPEYIEKLRNNAYEGRVVFNP 336
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeee...eeeeeeeee........eeeeeeeeeehhhhhhhhh........ee...eeeeeeeee...........eeee..........hhhhhhhhhh......ee..ee......eeee.hhh.eee.....hhhhhhhhh..hhhhhhhhhhh......eeeee....--.hhhhhhhhh..eeeee..hhhhhhhhhhh...eee...........eeeeee...hhhhhhhhhhheeeeeeeee......eeeeehhhhhhh..eee.....hhhhhhhhhhhhhh......eeeee..hhhhhhhhhhh.....eeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3wlf D   3 IPSSQYGFVFNKQSGLKLRNDLPVHKPKAGQLLLKVDAVGLCHSDLHVIYEGLDCGDNYVMGHEIAGTVAAVGDDVINYKVGDRVACVGPNGCGGCKYCRGAIDNVCKNAFGDWFGLGYDGGYQQYLLVTRPRNLSRIPDNVSADVAAASTDAVLTPYHAIKMAQVSPTSNILLIGAGG--GNAIQVAKAFGAKVTVLDKKKEARDQAKKLGADAVYETLPESISPGSFSACFDFVSVQATFDVCQKYVEPKGVIMPVGLGAPNLSFNLGDLALREIRILGSFWGTTNDLDDVLKLVSEGKVKPVVRSAKLKELPEYIEKLRNNAYEGRVVFNP 336
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172        |- |     192       202       212       222       232       242       252       262       272       282       292       302       312       322       332    
                                                                                                                                                                                                            181  |                                                                                                                                                        
                                                                                                                                                                                                               184
   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  (0, 0)

(no "SCOP Domain" information available for 3WLF)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3WLF)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (A1X808_CANPA | A1X808)
molecular function
    GO:0004022    alcohol dehydrogenase (NAD) activity    Catalysis of the reaction: an alcohol + NAD+ = an aldehyde or ketone + NADH + H+.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    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:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    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.

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  3wlf
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  1.1.1.1
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 Related Entries

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

UniProtKB/TrEMBL
        A1X808_CANPA | A1X808: 3wle 3wnq

(-) Related Entries Specified in the PDB File

3wle