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(-) Description

Title :  CRYSTAL STRUCTURE OF THE TERNARY COMPLEX BETWEEN A FUNGAL 17BETA-HYDROXYSTEROID DEHYDROGENASE (HOLO FORM) AND GENISTEIN
 
Authors :  A. Cassetta, D. Lamba, I. Krastanova
Date :  11 Jun 12  (Deposition) - 03 Jul 13  (Release) - 29 Oct 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  A,B,C,D  (1x)
Keywords :  Short Chain Dehydrogenase/Reductase, Rossmann Fold, Oxidoreductase, Nadp(H), Oxidoreductase-Oxidoreductase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Cassetta, D. Lamba, I. Krastanova, K. Kristan, M. Brunskole-Svegelj, J. Stojan, T. Lanisnik-Rizner
Crystallographic Studies On The Flavonoid Inhibition Of A Fungal 17Beta-Hydroxysteroid Dehydrogenase
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - 17BETA-HYDROXYSTEROID DEHYDROGENASE
    Chains: A, B, C, D
    EC Number: 1.1.1.62
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGEX
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: 17HSDCL
    Organism Common: FILAMENTOUS FUNGUS
    Organism Scientific: COCHLIOBOLUS LUNATUS
    Organism Taxid: 5503
    Strain: M118

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD
Biological Unit 3 (1x): ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 18)

Asymmetric Unit (3, 18)
No.NameCountTypeFull Name
1DMS12Ligand/IonDIMETHYL SULFOXIDE
2GEN2Ligand/IonGENISTEIN
3NAP4Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Biological Unit 1 (3, 8)
No.NameCountTypeFull Name
1DMS5Ligand/IonDIMETHYL SULFOXIDE
2GEN1Ligand/IonGENISTEIN
3NAP2Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Biological Unit 2 (3, 10)
No.NameCountTypeFull Name
1DMS7Ligand/IonDIMETHYL SULFOXIDE
2GEN1Ligand/IonGENISTEIN
3NAP2Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Biological Unit 3 (3, 18)
No.NameCountTypeFull Name
1DMS12Ligand/IonDIMETHYL SULFOXIDE
2GEN2Ligand/IonGENISTEIN
3NAP4Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE

(-) Sites  (18, 18)

Asymmetric Unit (18, 18)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:25 , ARG A:28 , GLY A:29 , ILE A:30 , TYR A:49 , ALA A:50 , ASN A:51 , SER A:52 , 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 , TYR A:167 , LYS A:171 , PRO A:197 , GLY A:198 , GLY A:199 , THR A:200 , THR A:202 , ASP A:203 , MET A:204 , HOH A:409 , HOH A:424 , HOH A:435 , HOH A:469BINDING SITE FOR RESIDUE NAP A 301
02AC2SOFTWAREASN A:154 , PHE A:159 , GLY A:198 , GLY A:199BINDING SITE FOR RESIDUE DMS A 302
03AC3SOFTWAREHIS A:211 , TYR A:212 , ILE A:213BINDING SITE FOR RESIDUE DMS A 303
04AC4SOFTWARELYS A:74 , ALA A:75 , GLU A:82 , LYS A:85 , GLN A:89BINDING SITE FOR RESIDUE DMS A 304
05AC5SOFTWAREGLY B:25 , ARG B:28 , GLY B:29 , ILE B:30 , TYR B:49 , ALA B:50 , ASN B:51 , SER B:52 , 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 , SER B:153 , TYR B:167 , LYS B:171 , PRO B:197 , GLY B:198 , GLY B:199 , THR B:200 , THR B:202 , MET B:204 , GEN B:302 , HOH B:414 , HOH B:427 , HOH B:450 , HOH B:458BINDING SITE FOR RESIDUE NAP B 301
06AC6SOFTWAREPHE B:159 , GLY B:199 , MET B:204 , PHE B:205 , VAL B:208 , SER B:209 , TYR B:212 , ILE B:213 , MET B:227 , ALA B:228 , NAP B:301 , DMS B:303 , HOH B:476 , HOH B:480BINDING SITE FOR RESIDUE GEN B 302
07AC7SOFTWAREASN B:154 , GLY B:198 , GLY B:199 , GEN B:302BINDING SITE FOR RESIDUE DMS B 303
08AC8SOFTWAREGLY B:14 , GLU B:254 , HOH B:473 , PRO D:13BINDING SITE FOR RESIDUE DMS B 304
09AC9SOFTWAREGLY C:25 , ARG C:28 , GLY C:29 , ILE C:30 , TYR C:49 , 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:403 , HOH C:421 , HOH C:436 , HOH C:453 , HOH C:471BINDING SITE FOR RESIDUE NAP C 301
10BC1SOFTWAREASN C:154 , PHE C:159 , GLY C:199BINDING SITE FOR RESIDUE DMS C 302
11BC2SOFTWARELYS C:19 , GLY C:145 , ARG C:147 , VAL C:251 , HOH C:425 , HOH C:452BINDING SITE FOR RESIDUE DMS C 303
12BC3SOFTWAREASP C:114 , VAL C:115 , THR C:116 , GLU C:119 , HOH C:467BINDING SITE FOR RESIDUE DMS C 304
13BC4SOFTWAREGLY D:25 , ARG D:28 , GLY D:29 , ILE D:30 , TYR D:49 , 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 , SER D:153 , TYR D:167 , LYS D:171 , PRO D:197 , GLY D:198 , GLY D:199 , THR D:200 , THR D:202 , MET D:204 , GEN D:302 , HOH D:406 , HOH D:436 , HOH D:466 , HOH D:484 , HOH D:486BINDING SITE FOR RESIDUE NAP D 301
14BC5SOFTWAREPHE D:159 , GLY D:199 , MET D:204 , PHE D:205 , VAL D:208 , SER D:209 , TYR D:212 , ILE D:213 , MET D:227 , ALA D:228 , NAP D:301 , DMS D:303 , HOH D:481BINDING SITE FOR RESIDUE GEN D 302
15BC6SOFTWAREASN D:154 , PHE D:159 , GLY D:198 , GLY D:199 , ALA D:228 , GEN D:302BINDING SITE FOR RESIDUE DMS D 303
16BC7SOFTWARELYS D:74 , ALA D:75 , GLU D:82 , LYS D:85 , LEU D:86 , GLN D:89BINDING SITE FOR RESIDUE DMS D 304
17BC8SOFTWAREPRO D:162 , HIS D:211 , ILE D:213 , PRO D:214BINDING SITE FOR RESIDUE DMS D 305
18BC9SOFTWAREARG D:140 , LEU D:142 , LYS D:188BINDING SITE FOR RESIDUE DMS D 306

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4FJ1)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4FJ1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4FJ1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4FJ1)

(-) Exons   (0, 0)

(no "Exon" information available for 4FJ1)

(-) 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:261
                                                                                                                                                                                                                                                                                                     
               SCOP domains d4fj1a_ 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......hhhhhhhhhh.hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh.....eeee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fj1 A  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 B from PDB  Type:PROTEIN  Length:259
                                                                                                                                                                                                                                                                                                   
               SCOP domains d4fj1b_ B: 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....hhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh.....eeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fj1 B  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 C from PDB  Type:PROTEIN  Length:258
                                                                                                                                                                                                                                                                                                  
               SCOP domains d4fj1c_ C: 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....hhhhhhhhhhhh.hhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhh.....eeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4fj1 C  13 PGRLDGKVALVTGSGRGIGAAVAVHLGRLGAKVVVNYANSTKDAEKVVSEIKALGSDAIAIKADIRQVPEIVKLFDQAVAHFGHLDIAVSNSGVVSFGHLKDVTEEEFDRVFSLNTRGQFFVAREAYRHLTEGGRIVLTSSNTSKDFSVPKHSLYSGSKGAVDSFVRIFSKDCGDKKITVNAVAPGGTVTDMFHEVSHHYIPNGTSYTAEQRQQMAAHASPLHRNGWPQDVANVVGFLVSKEGEWVNGKVLTLDGGAA 270
                                    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        


Chain D from PDB  Type:PROTEIN  Length:261
                                                                                                                                                                                                                                                                                                     
               SCOP domains d4fj1d_ D: 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....hhhhhhhhhhhh.hhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhh.....eeee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fj1 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)
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  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
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4FJ1)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4FJ1)

(-) Gene Ontology  (3, 3)

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  O93874_COCLU | O93874
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 Related Entries

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

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        O93874_COCLU | O93874: 3is3 3itd 3qwf 3qwh 3qwi 4fiz 4fj0 4fj2

(-) Related Entries Specified in the PDB File

3is3 APO FORM
3itd Y167F MUTANT
3qwf NADPH BOUND (HOLO FORM)
3qwh KAEMPFEROL INHIBITED TERNARY COMPLEX
3qwi COUMESTROL INHIBITED TERNARY COMPLEX
4fiz COUMESTROL BINARY COMPLEX (APO FORM)
4fj0 3,7-DIHYDROXYFLAVONE INHIBITED TERNARY COMPLEX
4fj2