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(-) Description

Title :  CRYSTAL STRUCTURE OF KETOSTEROID ISOMERASE COMPLEXED WITH EQUILENIN
 
Authors :  K. -H. Kim, S. -S. Cha, M. Byun, B. -H. Oh
Date :  21 May 03  (Deposition) - 04 Jun 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.10
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Isomerase, Ketosteroid Isomerase, Ksi, Equilenin, Pi, Lbhb (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. -W. Kim, S. -S. Cha, H. -S. Cho, J. -S. Kim, N. -C. Ha, M. -J. Cho, S. Joo, K. -K. Kim, K. -Y. Choi, B. -H. Oh
High-Resolution Crystal Structures Of Delta5-3-Ketosteroid Isomerase With And Without A Reaction Intermediate Analogue
Biochemistry V. 36 14030 1997
PubMed-ID: 9369474  |  Reference-DOI: 10.1021/BI971546+

(-) Compounds

Molecule 1 - STEROID DELTA-ISOMERASE
    Chains: A, B
    EC Number: 5.3.3.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Organism Scientific: PSEUDOMONAS PUTIDA
    Organism Taxid: 303
    Synonym: DELTA-5-3-KETOSTEROID ISOMERASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1BME1Ligand/IonBETA-MERCAPTOETHANOL
2EQU2Ligand/IonEQUILENIN

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:16 , ASP A:40 , PHE A:86 , MET A:90 , ASP A:103 , MET A:116 , TRP A:120 , TRP B:292 , ASN B:293BINDING SITE FOR RESIDUE EQU A1128
2AC2SOFTWAREASN A:93 , TYR B:216 , ASP B:240 , PHE B:286 , MET B:290 , LEU B:299 , ASP B:303 , MET B:316 , TRP B:320 , HOH B:2068BINDING SITE FOR RESIDUE EQU B1331
3AC3SOFTWARECYS B:269 , ARG B:287 , GLU B:289BINDING SITE FOR RESIDUE BME B1332

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1OH0)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Asp A:40 -Pro A:41
2Asp B:240 -Pro B:241

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1OH0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1OH0)

(-) Exons   (0, 0)

(no "Exon" information available for 1OH0)

(-) 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:125
 aligned with SDIS_PSEPU | P07445 from UniProtKB/Swiss-Prot  Length:131

    Alignment length:125
                                    12        22        32        42        52        62        72        82        92       102       112       122     
           SDIS_PSEPU     3 LPTAQEVQGLMARYIELVDVGDIEAIVQMYADDATVEDPFGQPPIHGREQIAAFYRQGLGGGKVRACLTGPVRASHNGCGAMPFRVEMVWNGQPCALDVIDVMRFDEHGRIQTMQAYWSEVNLSV 127
               SCOP domains d1oh0a_ A: Delta-5-3-ketosteroid isomerase, steroid delta-isomerase, KSI                                                      SCOP domains
               CATH domains 1oh0A00 A:3-127  [code=3.10.450.50, no name defined]                                                                          CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhheeeeeeee.......eehhhhhhhhhhhhhh..................eeeeeeeeeee....eeeeeeeeeeee.....eeeeeee.hhh.ee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 1oh0 A   3 LPTAQEVQGLMARYIELVDVGDIEAIVQMYADDATVEDPFGQPPIHGREQIAAFYRQGLGGGKVRACLTGPVRASHNGCGAMPFRVEMVWNGQPCALDVIDVMRFDEHGRIQTMQAYWSEVNLSV 127
                                    12        22        32        42        52        62        72        82        92       102       112       122     


Chain B from PDB  Type:PROTEIN  Length:128
 aligned with SDIS_PSEPU | P07445 from UniProtKB/Swiss-Prot  Length:131

    Alignment length:128
                                    12        22        32        42        52        62        72        82        92       102       112       122        
           SDIS_PSEPU     3 LPTAQEVQGLMARYIELVDVGDIEAIVQMYADDATVEDPFGQPPIHGREQIAAFYRQGLGGGKVRACLTGPVRASHNGCGAMPFRVEMVWNGQPCALDVIDVMRFDEHGRIQTMQAYWSEVNLSVREP 130
               SCOP domains d1oh0b_ B: Delta-5-3-ketosteroid isomerase, steroid delta-isomerase, KSI                                                         SCOP domains
               CATH domains 1oh0B00 B:203-330  [code=3.10.450.50, no name defined]                                                                           CATH domains
           Pfam domains (1) -----NTF2-1oh0B01 B:208-327                                                                                                  --- Pfam domains (1)
           Pfam domains (2) -----NTF2-1oh0B02 B:208-327                                                                                                  --- Pfam domains (2)
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhheeeeeeee.......eehhhhhhhhhhhhhh..................eeeeeeeeeeee..eeeeeeeeeeeee.....eeeeeee.hhh.eee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1oh0 B 203 LPTAQEVQGLMARYIELVDVGDIEAIVQMYADDATVEDPFGQPPIHGREQIAAFYRQGLGGGKVRACLTGPVRASHNGCGAMPFRVEMVWNGQPCALDVIDVMRFDEHGRIQTMQAYWSEVNLSVREP 330
                                   212       222       232       242       252       262       272       282       292       302       312       322
   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, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: NTF2 (66)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (SDIS_PSEPU | P07445)
molecular function
    GO:0016853    isomerase activity    Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
    GO:0004769    steroid delta-isomerase activity    Catalysis of the reaction: a 3-oxo-delta(5)-steroid = a 3-oxo-delta(4)-steroid.
biological process
    GO:0006629    lipid metabolic process    The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids.
    GO:0008202    steroid metabolic process    The chemical reactions and pathways involving steroids, compounds with a 1,2,cyclopentanoperhydrophenanthrene nucleus.

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 Related Entries

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

UniProtKB/Swiss-Prot
        SDIS_PSEPU | P07445: 1c7h 1cqs 1dmm 1dmn 1dmq 1e3r 1e3v 1e97 1ea2 1gs3 1k41 1ogx 1oho 1opy 1vzz 1w00 1w01 1w02 1w6y 2inx 2pzv 3cpo 3fzw 3ipt 3ows 3owu 3owy 3ox9 3oxa 3rgr 3sed 3t8n 3vgn 3vsy 4cdl 4k1u 4k1v 5ai1 5d81 5d82 5d83 5g2g 5kp1 5kp3 5kp4

(-) Related Entries Specified in the PDB File

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1opy KSI