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(-) Description

Title :  CRYSTAL STRUCTURE OF PLASMODIUM FALCIPARUM DIHYDROOROTATE DEHYDROGENASE BOUND WITH INHIBITOR DSM338 (N-[3,5-DIFLUORO-4-(TRIFLUOROMETHYL)PHENYL]-5-METHYL-2-(TRIFLUOROMETHYL)[1,2, 4]TRIAZOLO[1,5-A]PYRIMIDIN-7-AMINE)
 
Authors :  X. Deng, M. A. Phillips
Date :  11 Feb 14  (Deposition) - 04 Jun 14  (Release) - 09 Jul 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.07
Chains :  Asym./Biol. Unit :  A
Keywords :  Alpha/Beta Barrel, Oxidoreductase, Fmn, Mitochondrial Membrane, Oxidoreductase-Oxidoreductase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. Deng, S. Kokkonda, F. El Mazouni, J. White, J. N. Burrows, W. Kaminsky, S. A. Charman, D. Matthews, P. K. Rathod, M. A. Phillips
Fluorine Modulates Species Selectivity In The Triazolopyrimidine Class Of Plasmodium Falciparum Dihydroorotate Dehydrogenase Inhibitors.
J. Med. Chem. V. 57 5381 2014
PubMed-ID: 24801997  |  Reference-DOI: 10.1021/JM500481T

(-) 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 158-383, UNP RESIDUES 414-569
    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  (5, 6)

Asymmetric/Biological Unit (5, 6)
No.NameCountTypeFull Name
12V61Ligand/IonN-[3,5-DIFLUORO-4-(TRIFLUOROMETHYL)PHENYL]-5-METHYL-2-(TRIFLUOROMETHYL)[1,2,4]TRIAZOLO[1,5-A]PYRIMIDIN-7-AMINE
2FMN1Ligand/IonFLAVIN MONONUCLEOTIDE
3GOL1Ligand/IonGLYCEROL
4ORO1Ligand/IonOROTIC ACID
5SO42Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:172 , GLY A:181 , GLU A:182 , CYS A:184 , HIS A:185 , PHE A:188 , LEU A:189 , LEU A:197 , PHE A:227 , LEU A:240 , ILE A:263 , ARG A:265 , LEU A:531 , VAL A:532 , MET A:536BINDING SITE FOR RESIDUE 2V6 A 1001
2AC2SOFTWAREALA A:224 , ALA A:225 , GLY A:226 , LYS A:229 , THR A:249 , ILE A:263 , 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:1104 , HOH A:1106 , HOH A:1108 , HOH A:1109BINDING 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:345 , PRO A:346 , ASN A:347 , ASN A:458 , THR A:459 , FMN A:1002BINDING SITE FOR RESIDUE ORO A 1003
4AC4SOFTWAREASP A:180 , PRO A:261 , GLU A:375 , ASN A:381 , ASP A:382 , HOH A:1184 , HOH A:1210BINDING SITE FOR RESIDUE GOL A 1004
5AC5SOFTWAREGLU A:164 , ASN A:195 , LEU A:197 , SO4 A:1006 , HOH A:1105BINDING SITE FOR RESIDUE SO4 A 1005
6AC6SOFTWAREASN A:162 , GLU A:164 , ASN A:195 , TYR A:199 , SO4 A:1005BINDING SITE FOR RESIDUE SO4 A 1006

(-) SS Bonds  (0, 0)

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

(-) 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 4ORM)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4ORM)

(-) 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:375
                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhheee..eee...eee.........hhhhhhhh...eeeeeee............eeee....eeee.......hhhhhhhhhhhhhhhhh.hhhhh..eeeeee.......hhhhhhhhhhhhhhhhh.eeeee........hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhh........eeeeee....hhhhhhhhhhhhhhhh..eeee.........hhhhh....eeee..hhhhhhhhhhhhhhhh.....eeee....hhhhhhhhhhh.eeeeeehhhhhhhh.hhhhhhhhhhhhhhhhh....hhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4orm A 161 YNPEFFLYDIFLKFCLKYIDGEICHDLFLLLGKYNILPYDTSNDSIYACTNIKHLDFINPFGVAAGFDKNGVCIDSILKLGFSFIEIGTITPRGQTGNAKPRIFRDVESRSIINSCGFNNMGCDKVTENLILFRKRQEEDKLLSKHIVGVSIGKNKDTVNIVDDLKYCINKIGRYADYIAINVSSPNTPGLRDNQEAGKLKNIILSVKEEIDNLEKNNIMNDEFLWFNTTKKKPLVFVKLAPDLNQEQKKEIADVLLETNIDGMIISNTTTQINDIKSFENKKGGVSGAKLKDISTKFICEMYNYTNKQIPIIASGGIFSGLDALEKIEAGASVCQLYSCLVFNGMKSAVQIKRELNHLLYQRGYYNLKEAIGRK 565
                                   170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380  ||   420       430       440       450       460       470       480       490       500       510       520       530       540       550       560     
                                                                                                                                                                                                                                                        383|                                                                                                                                                       
                                                                                                                                                                                                                                                         414
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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 4ORM)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) 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

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UniProtKB/Swiss-Prot
        PYRD_PLAF7 | Q08210: 1tv5 3i65 3i68 3i6r 3o8a 3sfk 4cq8 4cq9 4cqa 4rx0 5boo 5del 5fi8 5tbo

(-) Related Entries Specified in the PDB File

4oqv 4ori