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(-) Description

Title :  COCRYSTAL STRUCTURE OF KYNURENINE 3-MONOOXYGENASE IN COMPLEX WITH UPF 648 INHIBITOR(KMO-394UPF)
 
Authors :  M. Amaral, C. Levy, D. J. Heyes, P. Lafite, T. F. Outeiro, F. Giorgini, D. N. S. Scrutton
Date :  05 Feb 13  (Deposition) - 10 Apr 13  (Release) - 01 May 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.13
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Monooxygenase Kynurenine Upf 648, Oxidoreductase-Oxidoreductase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Amaral, C. Levy, D. J. Heyes, P. Lafite, T. F. Outeiro, F. Giorgini, D. Leys, N. S. Scrutton
Structural Basis Of Kynurenine 3-Monooxygenase Inhibition.
Nature V. 496 382 2013
PubMed-ID: 23575632  |  Reference-DOI: 10.1038/NATURE12039

(-) Compounds

Molecule 1 - KYNURENINE 3-MONOOXYGENASE
    Chains: A, B
    EC Number: 1.14.13.9
    Engineered: YES
    Fragment: UNP RESIDUES 1-394
    Gene: BNA4, YBL098W, YBL0828
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: BIOSYNTHESIS OF NICOTINIC ACID PROTEIN 4, KYNURENINE 3- HYDROXYLASE

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
11HR1Ligand/Ion(1S,2S)-2-(3,4-DICHLOROBENZOYL)CYCLOPROPANECARBOXYLICACID
2FAD2Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
11HR-1Ligand/Ion(1S,2S)-2-(3,4-DICHLOROBENZOYL)CYCLOPROPANECARBOXYLICACID
2FAD1Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
11HR1Ligand/Ion(1S,2S)-2-(3,4-DICHLOROBENZOYL)CYCLOPROPANECARBOXYLICACID
2FAD1Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:8 , GLY A:9 , GLY A:11 , LEU A:12 , VAL A:13 , ASP A:32 , PHE A:33 , ARG A:34 , LEU A:52 , ALA A:53 , ARG A:109 , HIS A:131 , LYS A:132 , LEU A:133 , CYS A:167 , ASP A:168 , GLY A:169 , ALA A:173 , GLY A:313 , ASP A:314 , GLN A:325 , GLY A:326 , MET A:327 , ASN A:328 , HOH A:501 , HOH A:508 , HOH A:531 , HOH A:548 , HOH A:626 , HOH A:672 , HOH A:710 , HOH A:716 , HOH A:717BINDING SITE FOR RESIDUE FAD A 401
2AC2SOFTWAREGLY B:9 , GLY B:11 , LEU B:12 , VAL B:13 , ASP B:32 , PHE B:33 , ARG B:34 , ASN B:46 , LEU B:52 , ALA B:53 , ARG B:109 , HIS B:131 , LYS B:132 , LEU B:133 , CYS B:167 , ASP B:168 , GLY B:169 , ALA B:173 , TYR B:195 , GLY B:313 , ASP B:314 , GLY B:324 , GLN B:325 , GLY B:326 , MET B:327 , ASN B:328 , 1HR B:402 , HOH B:501 , HOH B:506 , HOH B:578 , HOH B:600 , HOH B:604 , HOH B:629 , HOH B:640BINDING SITE FOR RESIDUE FAD B 401
3AC3SOFTWAREALA B:53 , ARG B:83 , TYR B:97 , ILE B:104 , LEU B:221 , ILE B:232 , PHE B:246 , PRO B:321 , PHE B:322 , TYR B:323 , FAD B:401BINDING SITE FOR RESIDUE 1HR B 402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4J36)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Lys A:300 -Pro A:301
2Lys B:300 -Pro B:301

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4J36)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4J36)

(-) Exons   (0, 0)

(no "Exon" information available for 4J36)

(-) 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:371
                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..hhhhhhhhhhhhhh..eeeeee..................eeeehhhhhhhhhhhhhhhhhhhh...ee..eeeee.....eeeee....eeeehhhhhhhhhhhhh....eeee.eeeeeee.....eeeeeee.....eeeeeee.eeee.....hhhhhhhhhhh..eeeeee..eeeeeeee...................eeeeee....eeeeee.....eeeeeeeehhhhhh...hhhhhhhhhhhhhhhhh...hhhhhhhhhhh......eeeeee..ee....eee.hhhhhh......hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4j36 A   3 ESVAIIGAGLVGCLAALAFSKEGYNVTLYDFRQDPRLDTTKNKNLKSINLAISARGIDALKSIDPDACEHILQDMIPMKGRMIHDLKGRQESQLYEAINSINRSVLNNSLLDELEKSTTELKFGHKLVKIEWTDDKQICHFAIGEDLKTPHTEKYDFVIGCDGAYSATRSQMQRKVEMDFSQEYMNLRYIELYIPPTEEFKPNYGGNFAIAPDHLHIWPRHKFMLIALANSDGSFTSTFFGSKDQISDLITSKSRVREFLIENFPDIINIMDLDDAVKRFITYPKESLVCVNCKPYDVPGGKAILLGDAAHAMVPFYGQGMNCGFEDVRILMALLKKHSGDRSRAFTEYTQTRHKDLVSITELAKRNYKEM 377
                                    12        22        32        42        52        62        72        82        92    || 106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376 
                                                                                                                         97|                                                                                                                                                                                                                                                                                   
                                                                                                                         102                                                                                                                                                                                                                                                                                   


Chain B from PDB  Type:PROTEIN  Length:356
                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee..hhhhhhhhhhhhhh..eeeeee..................eeeehhhhhhhhhh....hhhhhhh..eee.eeeee.....eeeee.......eeeeehhhhhhhhhhhhh....eeee..eeeeee.....eeeeee....eeee.eeee.....hhhhhhhhh....eeeeeeeeeeeeeeee...................eeeeee....eeeeee.....eeeeeeehhhhhhhhh.hhhhhhhhhhhhhhhhh...hhhhhhhhhhhh..eeeeeeeee..ee....eee.hhhh...hhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4j36 B  -1 HMMSESVAIIGAGLVGCLAALAFSKEGYNVTLYDFRQDPRLDTTKNKNLKSINLAISARGIDALKSIDPDACEHILQDMIPMKGRMIHDLKGRQESQLYGLHGEAINSINRSVLNNSLLDELEKSTTELKFGHKLVKIEWTDDKQICHFAITPHTEKYDFVIGCDGAYSATRSQMQRKVEMDFSQEYMNLRYIELYIPPTEEFKPNYGGNFAIAPDHLHIWPRHKFMLIALANSDGSFTSTFFGSKDQISDLITSKSRVREFLIENFPDIINIMDLDDAVKRFITYPKESLVCVNCKPYDVPGGKAILLGDAAHAMVPFYGQGMNCGFEDVRILMALLKKHSGDRSRAFTEYTQTR 359
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148||     163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353      
                                                                                                                                                                                149|                                                                                                                                                                                                            
                                                                                                                                                                                 155
   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  (0, 0)

(no "SCOP Domain" information available for 4J36)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4J36)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4J36)

(-) Gene Ontology  (19, 19)

Asymmetric Unit(hide GO term definitions)

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  4j36
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 Related Entries

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

UniProtKB/Swiss-Prot
        KMO_YEAST | P38169: 4j2w 4j31 4j33 4j34

(-) Related Entries Specified in the PDB File

4j2w 4j31 4j33 4j34