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(-) Description

Title :  THE F116W MUTANT STRUCTURE OF KETOSTEROID ISOMERASE FROM COMAMONAS TESTOSTERONI
 
Authors :  Y. S. Yun, T. -H. Lee, S. Shin
Date :  11 Feb 03  (Deposition) - 24 Jul 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Ketosteroid Isomerase, Delta-5-3-Ketosteroid (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. S. Yun, T. -H. Lee, G. H. Nam, D. S. Jang, S. Shin, B. -H. Oh, K. Y. Choi
Origin Of The Different Ph Activity Profile In Two Homologous Ketosteroid Isomerases
J. Biol. Chem. V. 278 28229 2003
PubMed-ID: 12734184  |  Reference-DOI: 10.1074/JBC.M302166200

(-) Compounds

Molecule 1 - STEROID DELTA-ISOMERASE
    Chains: A, B, C, D
    EC Number: 5.3.3.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PKK223-3
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Mutation: YES
    Organism Scientific: COMAMONAS TESTOSTERONI
    Organism Taxid: 285
    Synonym: KETOSTEROID ISOMERASE

 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  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1OCV)

(-) Sites  (0, 0)

(no "Site" information available for 1OCV)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Asp A:38 -Pro A:39
2Asp B:238 -Pro B:239
3Asp C:438 -Pro C:439
4Asp D:638 -Pro D:639

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1OCV)

(-) 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:125
 aligned with SDIS_COMTE | P00947 from UniProtKB/Swiss-Prot  Length:125

    Alignment length:125
                                    10        20        30        40        50        60        70        80        90       100       110       120     
           SDIS_COMTE     1 MNTPEHMTAVVQRYVAALNAGDLDGIVALFADDATVEDPVGSEPRSGTAAIREFYANSLKLPLAVELTQEVRAVANEAAFAFTVSFEYQGRKTVVAPIDHFRFNGAGKVVSMRALFGEKNIHAGA 125
               SCOP domains d1ocva_ A: Delta-5-3-ketosteroid isomerase, steroid delta-isomerase, KSI                                                      SCOP domains
               CATH domains 1ocvA00 A:1-125  [code=3.10.450.50, no name defined]                                                                          CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeee.......eehhhhhhhhhhhhh....eeee....eee..eeeeeeeeeee..........eeeeee.....eeeeeee.hhh...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ocv A   1 MNTPEHMTAVVQRYVAALNAGDLDGIVALFADDATVEDPVGSEPRSGTAAIREFYANSLKLPLAVELTQEVRAVANEAAFAFIVSFEYQGRKTVVAPIDHFRFNGAGKVVSMRALWGEKNIHAGA 125
                                    10        20        30        40        50        60        70        80        90       100       110       120     


Chain B from PDB  Type:PROTEIN  Length:125
 aligned with SDIS_COMTE | P00947 from UniProtKB/Swiss-Prot  Length:125

    Alignment length:125
                                    10        20        30        40        50        60        70        80        90       100       110       120     
           SDIS_COMTE     1 MNTPEHMTAVVQRYVAALNAGDLDGIVALFADDATVEDPVGSEPRSGTAAIREFYANSLKLPLAVELTQEVRAVANEAAFAFTVSFEYQGRKTVVAPIDHFRFNGAGKVVSMRALFGEKNIHAGA 125
               SCOP domains d1ocvb_ B: Delta-5-3-ketosteroid isomerase, steroid delta-isomerase, KSI                                                      SCOP domains
               CATH domains 1ocvB00 B:201-325  [code=3.10.450.50, no name defined]                                                                        CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhh.hhhhhhhheeeeeeee.......eehhhhhhhhhhhhh....eeee....eee..eeeeeeeeeeee.........eeeeee.....eeeeeee.hhh...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ocv B 201 MNTPEHMTAVVQRYVAALNAGDLDGIVALFADDATVEDPVGSEPRSGTAAIREFYANSLKLPLAVELTQEVRAVANEAAFAFIVSFEYQGRKTVVAPIDHFRFNGAGKVVSMRALWGEKNIHAGA 325
                                   210       220       230       240       250       260       270       280       290       300       310       320     


Chain C from PDB  Type:PROTEIN  Length:125
 aligned with SDIS_COMTE | P00947 from UniProtKB/Swiss-Prot  Length:125

    Alignment length:125
                                    10        20        30        40        50        60        70        80        90       100       110       120     
           SDIS_COMTE     1 MNTPEHMTAVVQRYVAALNAGDLDGIVALFADDATVEDPVGSEPRSGTAAIREFYANSLKLPLAVELTQEVRAVANEAAFAFTVSFEYQGRKTVVAPIDHFRFNGAGKVVSMRALFGEKNIHAGA 125
               SCOP domains d1ocvc_ C: Delta-5-3-ketosteroid isomerase, steroid delta-isomerase, KSI                                                      SCOP domains
               CATH domains 1ocvC00 C:401-525  [code=3.10.450.50, no name defined]                                                                        CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhheeeeeeee.......eehhhhhhhhhhhhh....eeee....eee..eeeeeeeeeeee.........eeeeee.....eeeeeee.hhh...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ocv C 401 MNTPEHMTAVVQRYVAALNAGDLDGIVALFADDATVEDPVGSEPRSGTAAIREFYANSLKLPLAVELTQEVRAVANEAAFAFIVSFEYQGRKTVVAPIDHFRFNGAGKVVSMRALWGEKNIHAGA 525
                                   410       420       430       440       450       460       470       480       490       500       510       520     


Chain D from PDB  Type:PROTEIN  Length:125
 aligned with SDIS_COMTE | P00947 from UniProtKB/Swiss-Prot  Length:125

    Alignment length:125
                                    10        20        30        40        50        60        70        80        90       100       110       120     
           SDIS_COMTE     1 MNTPEHMTAVVQRYVAALNAGDLDGIVALFADDATVEDPVGSEPRSGTAAIREFYANSLKLPLAVELTQEVRAVANEAAFAFTVSFEYQGRKTVVAPIDHFRFNGAGKVVSMRALFGEKNIHAGA 125
               SCOP domains d1ocvd_ D: Delta-5-3-ketosteroid isomerase, steroid delta-isomerase, KSI                                                      SCOP domains
               CATH domains 1ocvD00 D:601-725  [code=3.10.450.50, no name defined]                                                                        CATH domains
           Pfam domains (1) -----NTF2-1ocvD01 D:606-724                                                                                                 - Pfam domains (1)
           Pfam domains (2) -----NTF2-1ocvD02 D:606-724                                                                                                 - Pfam domains (2)
           Pfam domains (3) -----NTF2-1ocvD03 D:606-724                                                                                                 - Pfam domains (3)
           Pfam domains (4) -----NTF2-1ocvD04 D:606-724                                                                                                 - Pfam domains (4)
         Sec.struct. author ..hhhhhhhhhhhhhhhhhh.hhhhhhh.eeeeeeee.......eehhhhhhhhhhhhh....eeee....eee..eeeeeeeeeee....eeee..eeeeee.....eeeeeee.hhh.eee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ocv D 601 MNTPEHMTAVVQRYVAALNAGDLDGIVALFADDATVEDPVGSEPRSGTAAIREFYANSLKLPLAVELTQEVRAVANEAAFAFIVSFEYQGRKTVVAPIDHFRFNGAGKVVSMRALWGEKNIHAGA 725
                                   610       620       630       640       650       660       670       680       690       700       710       720
   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
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (1, 4)

Asymmetric Unit
(-)
Clan: NTF2 (66)

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (SDIS_COMTE | P00947)
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.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
    GO:0005622    intracellular    The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

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    Asp A:38 - Pro A:39   [ RasMol ]  
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 Related Entries

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

UniProtKB/Swiss-Prot
        SDIS_COMTE | P00947: 1buq 1isk 1ogz 1ohp 1ohs 1qjg 3m8c 3mhe 3mki 3myt 3nbr 3nhx 3nm2 3nuv 3nxj 3ov4 3t8u 3unl 4l7k 5dre 8cho

(-) Related Entries Specified in the PDB File

1buq SOLUTION STRUCTURE OF DELTA-5-3-KETOSTEROID ISOMERASE COMPLEXED WITH THE STEROID 19- NORTESTOSTERONE-HEMISUCCINATE
1isk 3-OXO-DELTA5-STEROID ISOMERASE, NMR, 20 STRUCTURES
1qjg CRYSTAL STRUCTURE OF DELTA5-3-KETOSTEROID ISOMERASE FROM PSEUDOMONAS TESTOSTERONI IN COMPLEX WITH EQUILENIN
8cho CRYSTAL STRUCTURE OF DELTA5-3-KETOSTEROID ISOMERASE FROM PSEUDOMONAS TESTOSTERONI