HEADER LYASE 19-DEC-07 3BPW TITLE CRYSTAL STRUCTURE OF P. FALCIPARUM OROTIDINE 5'-MONOPHOSPHATE TITLE 2 DECARBOXYLASE COMPLEXED WITH XMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: OROTIDINE 5'-PHOSPHATE DECARBOXYLASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 4.1.1.23; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM; SOURCE 3 ORGANISM_TAXID: 5833; SOURCE 4 STRAIN: 3D7; SOURCE 5 GENE: OMPDC; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A-LIC KEYWDS P. FALCIPARUM, OROTIDINE 5'-MONOPHOSPHATE DECARBOXYLASE, XMP, LYASE, KEYWDS 2 PYRIMIDINE BIOSYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR Y.LIU,W.LAU,E.F.PAI REVDAT 4 30-AUG-23 3BPW 1 REMARK SEQADV REVDAT 3 18-MAY-11 3BPW 1 REMARK REVDAT 2 24-FEB-09 3BPW 1 VERSN REVDAT 1 18-NOV-08 3BPW 0 JRNL AUTH Y.LIU,W.LAU,E.F.PAI JRNL TITL CRYSTAL STRUCTURE OF P. FALCIPARUM OROTIDINE JRNL TITL 2 5'-MONOPHOSPHATE DECARBOXYLASE COMPLEXED WITH XMP JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 63705 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3394 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.75 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4331 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.13 REMARK 3 BIN R VALUE (WORKING SET) : 0.2380 REMARK 3 BIN FREE R VALUE SET COUNT : 249 REMARK 3 BIN FREE R VALUE : 0.2860 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5352 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 60 REMARK 3 SOLVENT ATOMS : 366 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : 0.22000 REMARK 3 B33 (A**2) : -0.20000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.114 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.109 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.069 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.040 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5729 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7758 ; 1.553 ; 1.967 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 690 ; 6.124 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 293 ;39.050 ;25.768 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1052 ;13.739 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;20.515 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 822 ; 0.112 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4387 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2900 ; 0.214 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4065 ; 0.318 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 374 ; 0.127 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 103 ; 0.241 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 25 ; 0.158 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 3460 ; 1.079 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5497 ; 1.668 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2595 ; 2.731 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2261 ; 3.940 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. COOT 0.1-3-PRE-1 IS ALSO USED FOR REFINEMENT. REMARK 4 REMARK 4 3BPW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JAN-08. REMARK 100 THE DEPOSITION ID IS D_1000045819. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-AUG-07 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.20 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CLSI REMARK 200 BEAMLINE : 08ID-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97934 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : DCM WITH CRYO-COOLED 1ST CRYSTAL REMARK 200 SAGITTALLY BENT 2ND CRYSTAL REMARK 200 FOLLOWED BY VERTICALLY FOCUSING REMARK 200 MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 66788 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 4.600 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : 0.06800 REMARK 200 FOR THE DATA SET : 11.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.39400 REMARK 200 R SYM FOR SHELL (I) : 0.39400 REMARK 200 FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 2Q8L REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 35.34 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 1000, 100MM AMMONIUM REMARK 280 PHOSPHATE, PH 7.2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K, PH 7.20 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 40.45100 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 41.79100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 40.45100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 41.79100 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6560 ANGSTROM**2 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2022 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2061 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A -18 REMARK 465 GLY A -17 REMARK 465 SER A -16 REMARK 465 SER A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 SER A -8 REMARK 465 SER A -7 REMARK 465 MET B -18 REMARK 465 GLY B -17 REMARK 465 SER B -16 REMARK 465 SER B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 HIS B -9 REMARK 465 SER B -8 REMARK 465 SER B -7 REMARK 465 GLY B -6 REMARK 465 LEU B -5 REMARK 465 VAL B -4 REMARK 465 PRO B -3 REMARK 465 ARG B -2 REMARK 465 GLY B -1 REMARK 465 MET B 321 REMARK 465 GLU B 322 REMARK 465 SER B 323 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 SER A 0 58.05 -114.56 REMARK 500 ASP A 141 -175.70 -172.44 REMARK 500 ASP B 141 -172.45 -172.08 REMARK 500 SER B 245 66.66 -111.29 REMARK 500 ASN B 270 -17.16 78.96 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 AUTHOR STATES THAT THE PEG IN THE STRUCTURE IS A PIECE OF PEG1000 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 3000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE XMP A 1000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE XMP B 1000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 2000 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2Q8L RELATED DB: PDB REMARK 900 APO STRUCTURE OF OROTIDINE 5'-MONOPHOSPHATE DECARBOXYLASE FROM P. REMARK 900 FALCIPARUM REMARK 900 RELATED ID: 2Q8Z RELATED DB: PDB REMARK 900 STRUCTURE OF P. FALCIPARUM OROTIDINE 5'-PHOSPHATE DECARBOXYLASE REMARK 900 COMPLEXED WITH 6-AMINO-UMP REMARK 900 RELATED ID: 2QAF RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PLASMODIUM FALCIPARUM OROTIDINE 5'-PHOSPHATE REMARK 900 DECARBOXYLASE COVALENTLY MODIFIED BY 6-IODO-UMP REMARK 900 RELATED ID: 3BAR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PLASMODIUM FALCIPARUM OROTIDINE 5'- REMARK 900 MONOPHOSPHATE DECARBOXYLASE COVALENTLY MODIFIED BY 6-AZIDO-UMP REMARK 900 RELATED ID: 3BPW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF P. FALCIPARUM OROTIDINE 5'-MONOPHOSPHATE REMARK 900 DECARBOXYLASE COMPLEXED WITH XMP REMARK 900 RELATED ID: 3MWA RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PLASMODIUM FALCIPARUM OROTIDINE 5'- REMARK 900 MONOPHOSPHATE DECARBOXYLASE COVALENTLY MODIFIED BY 2-PRIME-FLURO-6- REMARK 900 IODO-UMP REMARK 900 RELATED ID: 3N2M RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PLASMODIUM FALCIPARUM OROTIDINE 5'- REMARK 900 MONOPHOSPHATE DECARBOXYLASE COMPLEXED WITH 5-FLURO-6-AMINO-UMP REMARK 900 RELATED ID: 3N34 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF P. FALCIPARUM OROTIDINE 5'-MONOPHOSPHATE REMARK 900 DECARBOXYLASE COMPLEXED WITH 5-FLURO-6-AMINO-UMP, PRODUCED FROM 5- REMARK 900 FLURO-6-AZIDO-UMP REMARK 900 RELATED ID: 3N3M RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF P. FALCIPARUM OROTIDINE 5'-MONOPHOSPHATE REMARK 900 DECARBOXYLASE COMPLEXED WITH 6-AMINO-UMP DBREF 3BPW A 1 323 UNP Q8T6J6 Q8T6J6_PLAFA 1 323 DBREF 3BPW B 1 323 UNP Q8T6J6 Q8T6J6_PLAFA 1 323 SEQADV 3BPW MET A -18 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW GLY A -17 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW SER A -16 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW SER A -15 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW HIS A -14 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW HIS A -13 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW HIS A -12 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW HIS A -11 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW HIS A -10 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW HIS A -9 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW SER A -8 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW SER A -7 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW GLY A -6 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW LEU A -5 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW VAL A -4 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW PRO A -3 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW ARG A -2 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW GLY A -1 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW SER A 0 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW MET B -18 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW GLY B -17 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW SER B -16 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW SER B -15 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW HIS B -14 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW HIS B -13 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW HIS B -12 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW HIS B -11 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW HIS B -10 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW HIS B -9 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW SER B -8 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW SER B -7 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW GLY B -6 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW LEU B -5 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW VAL B -4 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW PRO B -3 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW ARG B -2 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW GLY B -1 UNP Q8T6J6 EXPRESSION TAG SEQADV 3BPW SER B 0 UNP Q8T6J6 EXPRESSION TAG SEQRES 1 A 342 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 342 LEU VAL PRO ARG GLY SER MET GLY PHE LYS VAL LYS LEU SEQRES 3 A 342 GLU LYS ARG ARG ASN ALA ILE ASN THR CYS LEU CYS ILE SEQRES 4 A 342 GLY LEU ASP PRO ASP GLU LYS ASP ILE GLU ASN PHE MET SEQRES 5 A 342 LYS ASN GLU LYS GLU ASN ASN TYR ASN ASN ILE LYS LYS SEQRES 6 A 342 ASN LEU LYS GLU LYS TYR ILE ASN ASN VAL SER ILE LYS SEQRES 7 A 342 LYS ASP ILE LEU LEU LYS ALA PRO ASP ASN ILE ILE ARG SEQRES 8 A 342 GLU GLU LYS SER GLU GLU PHE PHE TYR PHE PHE ASN HIS SEQRES 9 A 342 PHE CYS PHE TYR ILE ILE ASN GLU THR ASN LYS TYR ALA SEQRES 10 A 342 LEU THR PHE LYS MET ASN PHE ALA PHE TYR ILE PRO TYR SEQRES 11 A 342 GLY SER VAL GLY ILE ASP VAL LEU LYS ASN VAL PHE ASP SEQRES 12 A 342 TYR LEU TYR GLU LEU ASN ILE PRO THR ILE LEU ASP MET SEQRES 13 A 342 LYS ILE ASN ASP ILE GLY ASN THR VAL LYS ASN TYR ARG SEQRES 14 A 342 LYS PHE ILE PHE GLU TYR LEU LYS SER ASP SER CYS THR SEQRES 15 A 342 VAL ASN ILE TYR MET GLY THR ASN MET LEU LYS ASP ILE SEQRES 16 A 342 CYS TYR ASP GLU GLU LYS ASN LYS TYR TYR SER ALA PHE SEQRES 17 A 342 VAL LEU VAL LYS THR THR ASN PRO ASP SER ALA ILE PHE SEQRES 18 A 342 GLN LYS ASN LEU SER LEU ASP ASN LYS GLN ALA TYR VAL SEQRES 19 A 342 ILE MET ALA GLN GLU ALA LEU ASN MET SER SER TYR LEU SEQRES 20 A 342 ASN LEU GLU GLN ASN ASN GLU PHE ILE GLY PHE VAL VAL SEQRES 21 A 342 GLY ALA ASN SER TYR ASP GLU MET ASN TYR ILE ARG THR SEQRES 22 A 342 TYR PHE PRO ASN CYS TYR ILE LEU SER PRO GLY ILE GLY SEQRES 23 A 342 ALA GLN ASN GLY ASP LEU HIS LYS THR LEU THR ASN GLY SEQRES 24 A 342 TYR HIS LYS SER TYR GLU LYS ILE LEU ILE ASN ILE GLY SEQRES 25 A 342 ARG ALA ILE THR LYS ASN PRO TYR PRO GLN LYS ALA ALA SEQRES 26 A 342 GLN MET TYR TYR ASP GLN ILE ASN ALA ILE LEU LYS GLN SEQRES 27 A 342 ASN MET GLU SER SEQRES 1 B 342 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 342 LEU VAL PRO ARG GLY SER MET GLY PHE LYS VAL LYS LEU SEQRES 3 B 342 GLU LYS ARG ARG ASN ALA ILE ASN THR CYS LEU CYS ILE SEQRES 4 B 342 GLY LEU ASP PRO ASP GLU LYS ASP ILE GLU ASN PHE MET SEQRES 5 B 342 LYS ASN GLU LYS GLU ASN ASN TYR ASN ASN ILE LYS LYS SEQRES 6 B 342 ASN LEU LYS GLU LYS TYR ILE ASN ASN VAL SER ILE LYS SEQRES 7 B 342 LYS ASP ILE LEU LEU LYS ALA PRO ASP ASN ILE ILE ARG SEQRES 8 B 342 GLU GLU LYS SER GLU GLU PHE PHE TYR PHE PHE ASN HIS SEQRES 9 B 342 PHE CYS PHE TYR ILE ILE ASN GLU THR ASN LYS TYR ALA SEQRES 10 B 342 LEU THR PHE LYS MET ASN PHE ALA PHE TYR ILE PRO TYR SEQRES 11 B 342 GLY SER VAL GLY ILE ASP VAL LEU LYS ASN VAL PHE ASP SEQRES 12 B 342 TYR LEU TYR GLU LEU ASN ILE PRO THR ILE LEU ASP MET SEQRES 13 B 342 LYS ILE ASN ASP ILE GLY ASN THR VAL LYS ASN TYR ARG SEQRES 14 B 342 LYS PHE ILE PHE GLU TYR LEU LYS SER ASP SER CYS THR SEQRES 15 B 342 VAL ASN ILE TYR MET GLY THR ASN MET LEU LYS ASP ILE SEQRES 16 B 342 CYS TYR ASP GLU GLU LYS ASN LYS TYR TYR SER ALA PHE SEQRES 17 B 342 VAL LEU VAL LYS THR THR ASN PRO ASP SER ALA ILE PHE SEQRES 18 B 342 GLN LYS ASN LEU SER LEU ASP ASN LYS GLN ALA TYR VAL SEQRES 19 B 342 ILE MET ALA GLN GLU ALA LEU ASN MET SER SER TYR LEU SEQRES 20 B 342 ASN LEU GLU GLN ASN ASN GLU PHE ILE GLY PHE VAL VAL SEQRES 21 B 342 GLY ALA ASN SER TYR ASP GLU MET ASN TYR ILE ARG THR SEQRES 22 B 342 TYR PHE PRO ASN CYS TYR ILE LEU SER PRO GLY ILE GLY SEQRES 23 B 342 ALA GLN ASN GLY ASP LEU HIS LYS THR LEU THR ASN GLY SEQRES 24 B 342 TYR HIS LYS SER TYR GLU LYS ILE LEU ILE ASN ILE GLY SEQRES 25 B 342 ARG ALA ILE THR LYS ASN PRO TYR PRO GLN LYS ALA ALA SEQRES 26 B 342 GLN MET TYR TYR ASP GLN ILE ASN ALA ILE LEU LYS GLN SEQRES 27 B 342 ASN MET GLU SER HET XMP A1000 24 HET PEG A2000 7 HET PO4 B3000 5 HET XMP B1000 24 HETNAM XMP XANTHOSINE-5'-MONOPHOSPHATE HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM PO4 PHOSPHATE ION HETSYN XMP 5-MONOPHOSPHATE-9-BETA-D-RIBOFURANOSYL XANTHINE FORMUL 3 XMP 2(C10 H14 N4 O9 P 1+) FORMUL 4 PEG C4 H10 O3 FORMUL 5 PO4 O4 P 3- FORMUL 7 HOH *366(H2 O) HELIX 1 1 GLY A 2 ASN A 15 1 14 HELIX 2 2 ASP A 25 ASN A 39 1 15 HELIX 3 3 TYR A 41 GLU A 50 1 10 HELIX 4 4 LYS A 51 VAL A 56 5 6 HELIX 5 5 LYS A 59 LEU A 64 1 6 HELIX 6 6 ALA A 66 GLU A 74 1 9 HELIX 7 7 GLU A 77 ASN A 95 1 19 HELIX 8 8 LYS A 96 ALA A 98 5 3 HELIX 9 9 ALA A 106 ILE A 109 5 4 HELIX 10 10 GLY A 112 ASN A 130 1 19 HELIX 11 11 ILE A 142 GLU A 155 1 14 HELIX 12 12 THR A 170 ILE A 176 5 7 HELIX 13 13 SER A 199 LYS A 204 1 6 HELIX 14 14 ALA A 213 ASN A 229 1 17 HELIX 15 15 LEU A 230 ASN A 234 5 5 HELIX 16 16 SER A 245 PHE A 256 1 12 HELIX 17 17 ASP A 272 TYR A 281 1 10 HELIX 18 18 SER A 284 GLU A 286 5 3 HELIX 19 19 GLY A 293 LYS A 298 1 6 HELIX 20 20 TYR A 301 GLU A 322 1 22 HELIX 21 21 GLY B 2 ASN B 15 1 14 HELIX 22 22 ASP B 25 ASN B 39 1 15 HELIX 23 23 TYR B 41 GLU B 50 1 10 HELIX 24 24 LYS B 51 VAL B 56 5 6 HELIX 25 25 LYS B 59 LEU B 64 1 6 HELIX 26 26 ALA B 66 GLU B 74 1 9 HELIX 27 27 GLU B 77 ASN B 95 1 19 HELIX 28 28 LYS B 96 ALA B 98 5 3 HELIX 29 29 ALA B 106 TYR B 108 5 3 HELIX 30 30 GLY B 112 LEU B 129 1 18 HELIX 31 31 ILE B 142 GLU B 155 1 14 HELIX 32 32 THR B 170 ILE B 176 5 7 HELIX 33 33 SER B 199 LYS B 204 1 6 HELIX 34 34 ALA B 213 ASN B 229 1 17 HELIX 35 35 LEU B 230 ASN B 234 5 5 HELIX 36 36 SER B 245 PHE B 256 1 12 HELIX 37 37 ASP B 272 TYR B 281 1 10 HELIX 38 38 SER B 284 GLU B 286 5 3 HELIX 39 39 GLY B 293 LYS B 298 1 6 HELIX 40 40 TYR B 301 ASN B 320 1 20 SHEET 1 A 9 LEU A 18 GLY A 21 0 SHEET 2 A 9 THR A 100 ASN A 104 1 O THR A 100 N ILE A 20 SHEET 3 A 9 THR A 133 ILE A 139 1 O ASP A 136 N MET A 103 SHEET 4 A 9 SER A 161 VAL A 164 1 O SER A 161 N LEU A 135 SHEET 5 A 9 SER A 187 LYS A 193 1 O PHE A 189 N CYS A 162 SHEET 6 A 9 ILE A 237 VAL A 241 1 O GLY A 238 N VAL A 190 SHEET 7 A 9 ILE A 261 SER A 263 1 O LEU A 262 N PHE A 239 SHEET 8 A 9 ILE A 288 ILE A 292 1 O LEU A 289 N SER A 263 SHEET 9 A 9 LEU A 18 GLY A 21 1 N CYS A 19 O ILE A 290 SHEET 1 B 2 TYR A 178 ASP A 179 0 SHEET 2 B 2 LYS A 184 TYR A 185 -1 O LYS A 184 N ASP A 179 SHEET 1 C 2 SER A 207 LEU A 208 0 SHEET 2 C 2 LYS A 211 GLN A 212 -1 O LYS A 211 N LEU A 208 SHEET 1 D 9 LEU B 18 LEU B 22 0 SHEET 2 D 9 THR B 100 ASN B 104 1 O LYS B 102 N LEU B 22 SHEET 3 D 9 THR B 133 ILE B 139 1 O ASP B 136 N MET B 103 SHEET 4 D 9 SER B 161 VAL B 164 1 O SER B 161 N LEU B 135 SHEET 5 D 9 SER B 187 LYS B 193 1 O PHE B 189 N CYS B 162 SHEET 6 D 9 ILE B 237 VAL B 241 1 O GLY B 238 N ALA B 188 SHEET 7 D 9 ILE B 261 SER B 263 1 O LEU B 262 N PHE B 239 SHEET 8 D 9 ILE B 288 ILE B 292 1 O LEU B 289 N SER B 263 SHEET 9 D 9 LEU B 18 LEU B 22 1 N CYS B 19 O ILE B 290 SHEET 1 E 2 TYR B 178 ASP B 179 0 SHEET 2 E 2 LYS B 184 TYR B 185 -1 O LYS B 184 N ASP B 179 SHEET 1 F 2 SER B 207 LEU B 208 0 SHEET 2 F 2 LYS B 211 GLN B 212 -1 O LYS B 211 N LEU B 208 SITE 1 AC1 5 LYS B 147 ARG B 150 ASP B 179 GLU B 180 SITE 2 AC1 5 GLU B 181 SITE 1 AC2 15 ASP A 23 LYS A 102 ASN A 104 ASP A 136 SITE 2 AC2 15 LYS A 138 LEU A 191 THR A 194 THR A 195 SITE 3 AC2 15 PRO A 264 GLN A 269 GLY A 293 ARG A 294 SITE 4 AC2 15 ASP B 141 ILE B 142 THR B 145 SITE 1 AC3 15 ASP A 141 ILE A 142 THR A 145 ASP B 23 SITE 2 AC3 15 LYS B 102 ASN B 104 LYS B 138 LEU B 191 SITE 3 AC3 15 THR B 194 THR B 195 PRO B 264 ALA B 268 SITE 4 AC3 15 GLN B 269 GLY B 293 ARG B 294 SITE 1 AC4 5 ASN A 299 PRO A 300 MET A 308 TYR A 309 SITE 2 AC4 5 GLN A 312 CRYST1 80.902 83.582 89.793 90.00 90.00 90.00 P 21 21 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.012361 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011964 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011137 0.00000