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(-) Description

Title :  CRYSTAL STRUCTURE OF A 17BETA-HYDROXYSTEROID DEHYDROGENASE (HOLO FORM) FROM FUNGUS COCHLIOBOLUS LUNATUS IN COMPLEX WITH NADPH AND COUMESTROL
 
Authors :  A. Cassetta, D. Lamba, I. Krastanova, J. Stojan, T. Lanisnik Rizner, K M. Brunskole
Date :  28 Feb 11  (Deposition) - 18 Jan 12  (Release) - 03 Jul 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  17Beta-Hydroxysteroid Dehydrogenase, Short Chain Dehydrogenase/Reductase, Phytoestrogens, Flavonoid, Rossmann Fold, Cytosol, Oxidoreductase-Oxidoreductase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  A. Cassetta, I. Krastanova, K. Kristan, M. Brunskole Svegelj, D. Lamba, T. Lanisnik Rizner, J. Stojan
Structural Studies On The Flavonoid Inhibition Of A Fungal 17Beta-Hydroxysteroid Dehydrogenase
Biochem. J. V. 441 151 2012
PubMed-ID: 21929506  |  Reference-DOI: 10.1042/BJ20110567

(-) Compounds

Molecule 1 - 17BETA-HYDROXYSTEROID DEHYDROGENASE
    ChainsA, B, C, D
    EC Number1.1.1.62
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPGEX
    Expression System StrainJM107
    Expression System Taxid562
    Expression System Vector TypePLASMID
    Gene17HSDCL
    Organism ScientificCOCHLIOBOLUS LUNATUS
    Organism Taxid5503
    StrainM118

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 16)

Asymmetric Unit (3, 16)
No.NameCountTypeFull Name
1CUE3Ligand/IonCOUMESTROL
2EDO9Ligand/Ion1,2-ETHANEDIOL
3NAP4Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Biological Unit 1 (3, 8)
No.NameCountTypeFull Name
1CUE2Ligand/IonCOUMESTROL
2EDO4Ligand/Ion1,2-ETHANEDIOL
3NAP2Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Biological Unit 2 (3, 8)
No.NameCountTypeFull Name
1CUE1Ligand/IonCOUMESTROL
2EDO5Ligand/Ion1,2-ETHANEDIOL
3NAP2Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE

(-) Sites  (16, 16)

Asymmetric Unit (16, 16)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:25 , ARG A:28 , GLY A:29 , ILE A:30 , ALA A:50 , ASN A:51 , SER A:52 , ALA A:75 , ASP A:76 , ILE A:77 , ARG A:78 , ASN A:103 , SER A:104 , GLY A:105 , LEU A:126 , THR A:151 , SER A:152 , SER A:153 , TYR A:167 , LYS A:171 , PRO A:197 , GLY A:198 , GLY A:199 , THR A:200 , THR A:202 , MET A:204 , CUE A:272 , HOH A:313 , HOH A:327 , HOH A:366BINDING SITE FOR RESIDUE NAP A 271
02AC2SOFTWAREASN A:154 , PHE A:159 , GLY A:199 , MET A:204 , TYR A:212 , ILE A:213 , MET A:227 , ALA A:228 , NAP A:271BINDING SITE FOR RESIDUE CUE A 272
03AC3SOFTWAREASP A:242 , ASN A:245BINDING SITE FOR RESIDUE EDO A 273
04AC4SOFTWAREALA A:92BINDING SITE FOR RESIDUE EDO A 274
05AC5SOFTWARESER A:160 , TYR A:212 , EDO A:276BINDING SITE FOR RESIDUE EDO A 275
06AC6SOFTWAREPRO A:162 , HIS A:211 , EDO A:275BINDING SITE FOR RESIDUE EDO A 276
07AC7SOFTWAREGLY B:25 , ARG B:28 , GLY B:29 , ILE B:30 , TYR B:49 , ALA B:50 , ASN B:51 , SER B:52 , ALA B:75 , ASP B:76 , ILE B:77 , ARG B:78 , ASN B:103 , SER B:104 , GLY B:105 , LEU B:126 , THR B:151 , SER B:152 , TYR B:167 , LYS B:171 , PRO B:197 , GLY B:198 , GLY B:199 , THR B:200 , THR B:202 , MET B:204 , CUE B:272 , HOH B:287 , HOH B:289 , HOH B:294 , HOH B:318 , HOH B:320 , HOH B:329BINDING SITE FOR RESIDUE NAP B 271
08AC8SOFTWAREASN B:154 , PHE B:159 , GLY B:199 , MET B:204 , PHE B:205 , TYR B:212 , ILE B:213 , MET B:227 , ALA B:228 , NAP B:271 , HOH B:306BINDING SITE FOR RESIDUE CUE B 272
09AC9SOFTWAREGLY C:25 , ARG C:28 , GLY C:29 , ILE C:30 , ALA C:50 , ASN C:51 , SER C:52 , ALA C:75 , ASP C:76 , ILE C:77 , ARG C:78 , ASN C:103 , SER C:104 , GLY C:105 , LEU C:126 , THR C:151 , SER C:152 , SER C:153 , TYR C:167 , LYS C:171 , PRO C:197 , GLY C:198 , GLY C:199 , THR C:200 , THR C:202 , MET C:204 , HOH C:276 , HOH C:280 , HOH C:288 , HOH C:300 , HOH C:323BINDING SITE FOR RESIDUE NAP C 271
10BC1SOFTWARELYS C:19 , GLY C:145 , ARG C:147 , VAL C:251 , LYS C:253BINDING SITE FOR RESIDUE EDO C 272
11BC2SOFTWARESER C:160BINDING SITE FOR RESIDUE EDO C 273
12BC3SOFTWAREGLY D:25 , ARG D:28 , GLY D:29 , ILE D:30 , ALA D:50 , ASN D:51 , SER D:52 , ASP D:76 , ILE D:77 , ARG D:78 , ASN D:103 , SER D:104 , GLY D:105 , LEU D:126 , THR D:151 , SER D:152 , TYR D:167 , LYS D:171 , PRO D:197 , GLY D:198 , GLY D:199 , THR D:200 , THR D:202 , MET D:204 , CUE D:272 , HOH D:290 , HOH D:302 , HOH D:320 , HOH D:386 , HOH D:420BINDING SITE FOR RESIDUE NAP D 271
13BC4SOFTWAREASN D:154 , PHE D:159 , GLY D:199 , PHE D:205 , TYR D:212 , MET D:227 , ALA D:228 , NAP D:271 , HOH D:416BINDING SITE FOR RESIDUE CUE D 272
14BC5SOFTWAREARG D:236 , ASP D:242BINDING SITE FOR RESIDUE EDO D 273
15BC6SOFTWARELYS D:74 , GLU D:82 , LYS D:85 , GLN D:89BINDING SITE FOR RESIDUE EDO D 274
16BC7SOFTWAREARG D:122BINDING SITE FOR RESIDUE EDO D 275

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3QWI)

(-) 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:260
 aligned with O93874_COCLU | O93874 from UniProtKB/TrEMBL  Length:270

    Alignment length:260
                                    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
         O93874_COCLU    11 YIPGRLDGKVALVTGSGRGIGAAVAVHLGRLGAKVVVNYANSTKDAEKVVSEIKALGSDAIAIKADIRQVPEIVKLFDQAVAHFGHLDIAVSNSGVVSFGHLKDVTEEEFDRVFSLNTRGQFFVAREAYRHLTEGGRIVLTSSNTSKDFSVPKHSLYSGSKGAVDSFVRIFSKDCGDKKITVNAVAPGGTVTDMFHEVSHHYIPNGTSYTAEQRQQMAAHASPLHRNGWPQDVANVVGFLVSKEGEWVNGKVLTLDGGAA 270
               SCOP domains d3qwia_ A: automated matches                                                                                                                                                                                                                                         SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeee....hhhhhhhhhhhhhh..eeeeee..hhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhhh...eee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeee............hhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee....hhhhhhhhhhh..hhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhh.....eeee..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qwi A  11 YIPGRLDGKVALVTGSGRGIGAAVAVHLGRLGAKVVVNYANSTKDAEKVVSEIKALGSDAIAIKADIRQVPEIVKLFDQAVAHFGHLDIAVSNSGVVSFGHLKDVTEEEFDRVFSLNTRGQFFVAREAYRHLTEGGRIVLTSSNTSKDFSVPKHSLYSGSKGAVDSFVRIFSKDCGDKKITVNAVAPGGTVTDMFHEVSHHYIPNGTSYTAEQRQQMAAHASPLHRNGWPQDVANVVGFLVSKEGEWVNGKVLTLDGGAA 270
                                    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

Chain B from PDB  Type:PROTEIN  Length:261
 aligned with O93874_COCLU | O93874 from UniProtKB/TrEMBL  Length:270

    Alignment length:261
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269 
         O93874_COCLU    10 TYIPGRLDGKVALVTGSGRGIGAAVAVHLGRLGAKVVVNYANSTKDAEKVVSEIKALGSDAIAIKADIRQVPEIVKLFDQAVAHFGHLDIAVSNSGVVSFGHLKDVTEEEFDRVFSLNTRGQFFVAREAYRHLTEGGRIVLTSSNTSKDFSVPKHSLYSGSKGAVDSFVRIFSKDCGDKKITVNAVAPGGTVTDMFHEVSHHYIPNGTSYTAEQRQQMAAHASPLHRNGWPQDVANVVGFLVSKEGEWVNGKVLTLDGGAA 270
               SCOP domains d3qwib_ B: automated matches                                                                                                                                                                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eeee.....hhhhhhhhhhhhh..eeeeee..hhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhhh...eee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeee............hhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee....hhhhhhhhhhhh.hhhhhhhhhhhhhhhh........hhhhhhhhhhhhh..........eeee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qwi B  10 TYIPGRLDGKVALVTGSGRGIGAAVAVHLGRLGAKVVVNYANSTKDAEKVVSEIKALGSDAIAIKADIRQVPEIVKLFDQAVAHFGHLDIAVSNSGVVSFGHLKDVTEEEFDRVFSLNTRGQFFVAREAYRHLTEGGRIVLTSSNTSKDFSVPKHSLYSGSKGAVDSFVRIFSKDCGDKKITVNAVAPGGTVTDMFHEVSHHYIPNGTSYTAEQRQQMAAHASPLHRNGWPQDVANVVGFLVSKEGEWVNGKVLTLDGGAA 270
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269 

Chain C from PDB  Type:PROTEIN  Length:259
 aligned with O93874_COCLU | O93874 from UniProtKB/TrEMBL  Length:270

    Alignment length:259
                                    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         
         O93874_COCLU    12 IPGRLDGKVALVTGSGRGIGAAVAVHLGRLGAKVVVNYANSTKDAEKVVSEIKALGSDAIAIKADIRQVPEIVKLFDQAVAHFGHLDIAVSNSGVVSFGHLKDVTEEEFDRVFSLNTRGQFFVAREAYRHLTEGGRIVLTSSNTSKDFSVPKHSLYSGSKGAVDSFVRIFSKDCGDKKITVNAVAPGGTVTDMFHEVSHHYIPNGTSYTAEQRQQMAAHASPLHRNGWPQDVANVVGFLVSKEGEWVNGKVLTLDGGAA 270
               SCOP domains d3qwic_ C: automated matches                                                                                                                                                                                                                                        SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeee....hhhhhhhhhhhhhh..eeeeee..hhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhhh.eeeee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheeeeeeeeee............hhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee....hhhhhhhhhhhh.hhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhh.....eeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qwi C  12 IPGRLDGKVALVTGSGRGIGAAVAVHLGRLGAKVVVNYANSTKDAEKVVSEIKALGSDAIAIKADIRQVPEIVKLFDQAVAHFGHLDIAVSNSGVVSFGHLKDVTEEEFDRVFSLNTRGQFFVAREAYRHLTEGGRIVLTSSNTSKDFSVPKHSLYSGSKGAVDSFVRIFSKDCGDKKITVNAVAPGGTVTDMFHEVSHHYIPNGTSYTAEQRQQMAAHASPLHRNGWPQDVANVVGFLVSKEGEWVNGKVLTLDGGAA 270
                                    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         

Chain D from PDB  Type:PROTEIN  Length:261
 aligned with O93874_COCLU | O93874 from UniProtKB/TrEMBL  Length:270

    Alignment length:261
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269 
         O93874_COCLU    10 TYIPGRLDGKVALVTGSGRGIGAAVAVHLGRLGAKVVVNYANSTKDAEKVVSEIKALGSDAIAIKADIRQVPEIVKLFDQAVAHFGHLDIAVSNSGVVSFGHLKDVTEEEFDRVFSLNTRGQFFVAREAYRHLTEGGRIVLTSSNTSKDFSVPKHSLYSGSKGAVDSFVRIFSKDCGDKKITVNAVAPGGTVTDMFHEVSHHYIPNGTSYTAEQRQQMAAHASPLHRNGWPQDVANVVGFLVSKEGEWVNGKVLTLDGGAA 270
               SCOP domains d3qwid_ D: automated matches                                                                                                                                                                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eeee....hhhhhhhhhhhhhh..eeeeee..hhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhhh.eeeee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheeeeeeeeee............hhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee....hhhhhhhhhhhh.hhhhhhhhhhhhhhhh........hhhhhhhhhhhhh..........eeee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qwi D  10 TYIPGRLDGKVALVTGSGRGIGAAVAVHLGRLGAKVVVNYANSTKDAEKVVSEIKALGSDAIAIKADIRQVPEIVKLFDQAVAHFGHLDIAVSNSGVVSFGHLKDVTEEEFDRVFSLNTRGQFFVAREAYRHLTEGGRIVLTSSNTSKDFSVPKHSLYSGSKGAVDSFVRIFSKDCGDKKITVNAVAPGGTVTDMFHEVSHHYIPNGTSYTAEQRQQMAAHASPLHRNGWPQDVANVVGFLVSKEGEWVNGKVLTLDGGAA 270
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269 

   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  (1, 4)

Asymmetric Unit

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (O93874_COCLU | O93874)
molecular function
    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.
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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 Related Entries

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

UniProtKB/TrEMBL
        O93874_COCLU | O938743is3 3itd 3qwf 3qwh 4fiz 4fj0 4fj1 4fj2

(-) Related Entries Specified in the PDB File

3is3 APO FORM
3itd Y167F INACTIVE MUTANT
3qwf HOLO FORM (NADPH BOUND)
3qwh INHIBITED TERNARY COMPLEX (NADPH AND KAEMPFEROL)