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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN 3-ALPHA HYDROXYSTEROID DEHYDROGENASE TYPE 3 IN COMPLEX WITH NADP+, 5ALPHA-ANDROSTAN-3,17-DIONE AND (3BETA, 5ALPHA)-3-HYDROXYANDROSTAN-17-ONE
 
Authors :  B. Zhang, X. -J. Hu, S. -X. Lin
Date :  16 Jan 15  (Deposition) - 17 Feb 16  (Release) - 20 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.20
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Alpha-Beta Barrel, Human 3-Alpha Hds3, Akr, Akr1C2, Aldo-Keto Reductase, Nadph, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Zhang, X. J. Hu, X. Q. Wang, J. F. Theriault, D. W. Zhu, P. Shang, F. Labrie, S. X. Lin
Human 3 Alpha-Hydroxysteroid Dehydrogenase Type 3: Structural Clues Of 5 Alpha-Dht Reverse Binding And Enzyme Down-Regulation Decreasing Mcf7 Cell Growth.
Biochem. J. V. 473 1037 2016
PubMed-ID: 26929402  |  Reference-DOI: 10.1042/BCJ20160083

(-) Compounds

Molecule 1 - ALDO-KETO REDUCTASE FAMILY 1 MEMBER C2
    Chains: A, B
    EC Number: 1.3.1.20, 1.1.1.357
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 2-323
    Gene: AKR1C2, DDH2
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: 3-ALPHA-HSD3,CHLORDECONE REDUCTASE HOMOLOG HAKRD,DIHYDRODIOL DEHYDROGENASE 2,DD2,DIHYDRODIOL DEHYDROGENASE/BILE ACID-BINDING PROTEIN,DD/BABP,TRANS-1,2-DIHYDROBENZENE-1,2-DIOL DEHYDROGENASE,TYPE III 3-ALPHA-HYDROXYSTEROID DEHYDROGENASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 9)

Asymmetric/Biological Unit (6, 9)
No.NameCountTypeFull Name
15SD1Ligand/Ion5ALPHA-ANDROSTAN-3,17-DIONE
2AOX1Ligand/Ion(3BETA,5ALPHA)-3-HYDROXYANDROSTAN-17-ONE
3EDO2Ligand/Ion1,2-ETHANEDIOL
4GOL1Ligand/IonGLYCEROL
5NAP2Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
6SO42Ligand/IonSULFATE ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:22 , THR A:23 , TYR A:24 , ASP A:50 , TYR A:55 , LYS A:84 , HIS A:117 , SER A:166 , ASN A:167 , GLN A:190 , TYR A:216 , SER A:217 , ALA A:218 , LEU A:219 , GLY A:220 , SER A:221 , HIS A:222 , ALA A:253 , LEU A:268 , LYS A:270 , SER A:271 , TYR A:272 , ARG A:276 , GLN A:279 , ASN A:280 , 5SD A:402 , HOH A:617 , HOH A:639 , HOH A:709 , HOH A:748 , HOH A:760 , HOH A:814 , HOH A:826 , HOH A:833 , HOH A:851 , HOH A:870binding site for residue NAP A 401
2AC2SOFTWARETYR A:24 , VAL A:54 , TRP A:86 , HIS A:117 , ILE A:129 , LEU A:308 , NAP A:401 , HOH A:639 , HOH A:892binding site for residue 5SD A 402
3AC3SOFTWAREARG A:200 , LYS A:207 , ARG A:263 , HOH A:707 , HOH A:811 , HOH A:824 , HOH A:853 , GLN B:262 , SER B:290 , MET B:293 , HOH B:786binding site for residue SO4 A 403
4AC4SOFTWAREARG A:250 , LEU A:254 , GLN A:282binding site for residue EDO A 404
5AC5SOFTWAREGLU A:93 , ALA A:150 , LYS A:153 , HOH A:534 , HOH A:562 , HOH A:695 , HOH A:850binding site for residue GOL A 405
6AC6SOFTWAREGLY B:22 , THR B:23 , TYR B:24 , ASP B:50 , TYR B:55 , LYS B:84 , HIS B:117 , SER B:166 , ASN B:167 , GLN B:190 , TYR B:216 , SER B:217 , ALA B:218 , LEU B:219 , GLY B:220 , SER B:221 , HIS B:222 , ALA B:253 , LEU B:268 , ALA B:269 , LYS B:270 , SER B:271 , TYR B:272 , ARG B:276 , GLN B:279 , ASN B:280 , HOH B:620 , HOH B:646 , HOH B:675 , HOH B:684 , HOH B:730 , HOH B:736 , HOH B:739 , HOH B:757 , HOH B:826binding site for residue NAP B 401
7AC7SOFTWARETYR B:24 , VAL B:54 , ILE B:129 , HIS B:222 , LEU B:306binding site for residue AOX B 402
8AC8SOFTWAREGLN A:262 , SER A:290 , HOH A:824 , ARG B:200 , LYS B:207 , ARG B:263 , HOH B:686 , HOH B:786 , HOH B:788binding site for residue SO4 B 403
9AC9SOFTWAREARG B:250 , LEU B:254 , GLN B:282 , HOH B:854binding site for residue EDO B 404

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4XO6)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Glu A:225 -Pro A:226
2Glu B:225 -Pro B:226

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4XO6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4XO6)

(-) Exons   (0, 0)

(no "Exon" information available for 4XO6)

(-) 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:325
                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eee.....eee.eeee........hhhhhhhhhhhhhhh..eee.hhhhhhhhhhhhhhhhhhhh...hhhhheeeeeehhhhhhhhhhhhhhhhhhhhhh...eeeeee..........................hhhhhhhhhhhhhhh..eeeeeee..hhhhhhhhhh.........eeeee......hhhhhhhhhhh..eeeee.................hhhhhhhhhhhhhhhh.hhhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhh..hhhhhhhhhh.........hhhhh........... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xo6 A  -1 SVDDSKYQCVKLNDGHFMPVLGFGTYAPAEVPKSKALEAVKLAIEAGFHHIDSAHVYNNEEQVGLAIRSKIADGSVKREDIFYTSKLWSNSHRPELVRPALERSLKNLQLDYVDLYLIHFPVSVKPGEEVIPKDENGKILFDTVDLCATWEAMEKCKDAGLAKSIGVSNFNHRLLEMILNKPGLKYKPVCNQVECHPYFNQRKLLDFCKSKDIVLVAYSALGSHREEPWVDPNSPVLLEDPVLCALAKKHKRTPALIALRYQLQRGVVVLAKSYNEQRIRQNVQVFEFQLTSEEMKAIDGLNRNVRYLTLDIFAGPPNYPFSDEY 323
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318     


Chain B from PDB  Type:PROTEIN  Length:325
                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eee.....eee.eeee.........hhhhhhhhhhhhhh..eee.hhhhhhhhhhhhhhhhhhhh...hhhhheeeeeehhhhhhhhhhhhhhhhhhhhhh...eeeeee..........................hhhhhhhhhhhhhhh..eeeeeee..hhhhhhhhhh.........eeeee......hhhhhhhhhhh..eeeee.................hhhhhhhhhhhhhhhh.hhhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhh..hhhhhhhhhh.........hhhhh........... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xo6 B  -1 SVDDSKYQCVKLNDGHFMPVLGFGTYAPAEVPKSKALEAVKLAIEAGFHHIDSAHVYNNEEQVGLAIRSKIADGSVKREDIFYTSKLWSNSHRPELVRPALERSLKNLQLDYVDLYLIHFPVSVKPGEEVIPKDENGKILFDTVDLCATWEAMEKCKDAGLAKSIGVSNFNHRLLEMILNKPGLKYKPVCNQVECHPYFNQRKLLDFCKSKDIVLVAYSALGSHREEPWVDPNSPVLLEDPVLCALAKKHKRTPALIALRYQLQRGVVVLAKSYNEQRIRQNVQVFEFQLTSEEMKAIDGLNRNVRYLTLDIFAGPPNYPFSDEY 323
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318
   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 4XO6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4XO6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4XO6)

(-) Gene Ontology  (23, 23)

Asymmetric/Biological Unit(hide GO term definitions)

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    Glu A:225 - Pro A:226   [ RasMol ]  
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  AK1C2_HUMAN | P52895
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  1.1.1.357
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  1.3.1.20
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 Related Entries

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

UniProtKB/Swiss-Prot
        AK1C2_HUMAN | P52895: 1ihi 1j96 1xjb 2hdj 2ipj 4jq1 4jq2 4jq3 4jq4 4jqa 4jtq 4jtr 4l1w 4l1x 4xo7

(-) Related Entries Specified in the PDB File

4l1w 4l1x 4xo7