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(-) Description

Title :  CRYSTAL STRUCTURE OF PLASMODIUM FALCIPARUM DIHYDROOROTATE DEHYDROGENASE BOUND WITH INHIBITOR DSM265
 
Authors :  X. Deng, M. Phillips, D. Tomchick
Date :  08 Dec 14  (Deposition) - 29 Jul 15  (Release) - 29 Jul 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym./Biol. Unit :  A
Keywords :  Alpha/Beta Barrel, Oxidoreductase, Fm, Mitochondrial Membrane, Oxidoreductase-Oxidoreductase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. A. Phillips, J. Lotharius, K. Marsh, J. White, A. Dayan, K. L. White, J. W. Njoroge, F. El Mazouni, Y. Lao, S. Kokkonda, D. R. Tomchick, X. Deng, T. Laird, S. N. Bhatia, S. March, C. L. Ng, D. A. Fidock, S. Wittlin, M. Lafuente-Monasterio, F. J. Benito, L. M. Alonso, M. S. Martinez, M. B. Jimenez-Diaz, S. F. Bazaga, I. Angulo-Barturen, J. N. Haselden, J. Louttit, Y. Cui, A. Sridhar, A. M. Zeeman, C. Kocken, R. Sauerwein, K. Dechering, V. M. Avery, S. Duffy, M. Delves, R. Sinden A. Ruecker, K. S. Wickham, R. Rochford, J. Gahagen, L. Iyer, E. Riccio, J. Mirsalis, I. Bathhurst, T. Rueckle, X. Ding, B. Campo, D. Leroy, M. J. Rogers, P. K. Rathod, J. N. Burrows, S. A. Charman
A Long-Duration Dihydroorotate Dehydrogenase Inhibitor (Dsm265) For Prevention And Treatment Of Malaria.
Sci Transl Med V. 7 Ra111 2015
PubMed-ID: 26180101  |  Reference-DOI: 10.1126/SCITRANSLMED.AAA6645

(-) Compounds

Molecule 1 - DIHYDROOROTATE DEHYDROGENASE (QUINONE), MITOCHONDRIAL
    Chains: A
    EC Number: 1.3.5.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28B
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 158-569
    Gene: DIHYDROOROTATE DEHYDROGENASE, PFF0160C
    Organism Scientific: PLASMODIUM FALCIPARUM
    Organism Taxid: 36329
    Strain: 3D7
    Synonym: DHODEHASE, DIHYDROOROTATE OXIDASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 4)

Asymmetric/Biological Unit (4, 4)
No.NameCountTypeFull Name
1D651Ligand/Ion2-(1,1-DIFLUOROETHYL)-5-METHYL-N-[4-(PENTAFLUORO-LAMBDA~6~-SULFANYL)PHENYL][1,2,4]TRIAZOLO[1,5-A]PYRIMIDIN-7-AMINE
2FMN1Ligand/IonFLAVIN MONONUCLEOTIDE
3GOL1Ligand/IonGLYCEROL
4ORO1Ligand/IonOROTIC ACID

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:172 , LEU A:176 , GLY A:181 , GLU A:182 , CYS A:184 , HIS A:185 , PHE A:188 , LEU A:197 , PHE A:227 , LEU A:240 , ILE A:263 , ARG A:265 , ILE A:272 , LEU A:531 , MET A:536BINDING SITE FOR RESIDUE D65 A 1001
2AC2SOFTWAREALA A:224 , ALA A:225 , GLY A:226 , LYS A:229 , THR A:249 , ASN A:274 , ASN A:342 , LYS A:429 , SER A:457 , ASN A:458 , SER A:477 , GLY A:478 , SER A:505 , GLY A:506 , GLY A:507 , TYR A:528 , SER A:529 , ORO A:1003 , HOH A:1105 , HOH A:1106 , HOH A:1107 , HOH A:1118 , HOH A:1156BINDING SITE FOR RESIDUE FMN A 1002
3AC3SOFTWARELYS A:229 , ASN A:274 , CYS A:276 , GLY A:277 , PHE A:278 , ASN A:342 , SER A:344 , ASN A:458 , THR A:459 , FMN A:1002BINDING SITE FOR RESIDUE ORO A 1003
4AC4SOFTWAREGLU A:164 , ASN A:195 , ILE A:196 , LEU A:197BINDING SITE FOR RESIDUE GOL A 1004

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4RX0)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Gly A:248 -Thr A:249
2Lys A:260 -Pro A:261
3Ile A:456 -Ser A:457

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4RX0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4RX0)

(-) Exons   (0, 0)

(no "Exon" information available for 4RX0)

(-) 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:367
                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhheee..eee...eee.........hhhhhhh....eeeeeee............eeee....eeee.......hhhhhhhhhhhhhhhhhhhhhhh..eeeeee.......hhhhhhhhhhhhhhhhh.eeeee.....hhhhhhhhhhhhhhhhhhhhh...hhhhhh........eeeeee....hhhhhhhhhhhhhhh...eeee.........hhhhh....eeee..hhhhhhhhhhhhhhhh.....eeee....hhhhhhhhhhhh..eeeehhhhhhhh.hhhhhhhhhhhhhhhhh...hhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rx0 A 161 YNPEFFLYDIFLKFCLKYIDGEICHDLFLLLGKYNILPYDTSNDSIYACTNIKHLDFINPFGVAAGFDKNGVCIDSILKLGFSFIEIGTITPRGQTGNAKPRIFRDVESRSIINSCGFNNMGCDKVTENLILFRKRQEEDKLLSKHIVGVSIGKNKDTVNIVDDLKYCINKIGRYADYIAINVSSPEAGKLKNIILSVKEEIDNLEKNNIMNDEFLWFNTTKKKPLVFVKLAPDLNQEQKKEIADVLLETNIDGMIISNTTTQINDIKSFENKKGGVSGAKLKDISTKFICEMYNYTNKQIPIIASGGIFSGLDALEKIEAGASVCQLYSCLVFNGMKSAVQIKRELNHLLYQRGYYNLKEAIGRKH 566
                                   170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340     ||359       369       379   ||  419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       
                                                                                                                                                                                                                   346|                        383|                                                                                                                                                        
                                                                                                                                                                                                                    356                         414
   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 4RX0)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4RX0)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4RX0)

(-) Gene Ontology  (14, 14)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Gly A:248 - Thr A:249   [ RasMol ]  
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 Related Entries

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

UniProtKB/Swiss-Prot
        PYRD_PLAF7 | Q08210: 1tv5 3i65 3i68 3i6r 3o8a 3sfk 4cq8 4cq9 4cqa 4orm 5boo 5del 5fi8 5tbo

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4RX0)