HEADER LYASE 20-MAY-10 3N3M TITLE CRYSTAL STRUCTURE OF PLASMODIUM FALCIPARUM OROTIDINE 5'-MONOPHOSPHATE TITLE 2 DECARBOXYLASE COMPLEXED WITH 6-AMINO-UMP 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: 36329; SOURCE 4 STRAIN: 3D7; SOURCE 5 GENE: GI|9310996, PF10_0225; 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, 6-AMINO- KEYWDS 2 UMP, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.LIU,L.P.KOTRA,E.F.PAI REVDAT 3 06-SEP-23 3N3M 1 REMARK SEQADV REVDAT 2 25-JUL-12 3N3M 1 REMARK VERSN REVDAT 1 06-APR-11 3N3M 0 JRNL AUTH Y.LIU,L.P.KOTRA,E.F.PAI JRNL TITL CRYSTAL STRUCTURE OF PLASMODIUM FALCIPARUM OROTIDINE JRNL TITL 2 5'-MONOPHOSPHATE DECARBOXYLASE COMPLEXED WITH 6-AMINO-UMP JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.47 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 : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.47 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 97966 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) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.191 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5151 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) : 1.47 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.51 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6746 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.96 REMARK 3 BIN R VALUE (WORKING SET) : 0.2280 REMARK 3 BIN FREE R VALUE SET COUNT : 366 REMARK 3 BIN FREE R VALUE : 0.2690 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5345 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 91 REMARK 3 SOLVENT ATOMS : 597 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.29 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.09000 REMARK 3 B22 (A**2) : -0.16000 REMARK 3 B33 (A**2) : 0.07000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.074 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.044 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.114 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.959 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6081 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8267 ; 1.540 ; 1.966 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 756 ; 6.091 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 308 ;39.787 ;25.779 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1112 ;13.286 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;22.868 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 862 ; 0.108 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4733 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3301 ; 0.222 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4384 ; 0.319 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 576 ; 0.132 ; 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): 113 ; 0.222 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 41 ; 0.187 ; 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): 3664 ; 0.992 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5880 ; 1.577 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2728 ; 2.542 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2387 ; 3.739 ; 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 REMARK 4 REMARK 4 3N3M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-MAY-10. REMARK 100 THE DEPOSITION ID IS D_1000059337. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-OCT-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : A1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97710 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 99916 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.470 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 : 7.200 REMARK 200 R MERGE (I) : 0.06100 REMARK 200 R SYM (I) : 0.06100 REMARK 200 FOR THE DATA SET : 10.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.47 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.8 REMARK 200 DATA REDUNDANCY IN SHELL : 5.50 REMARK 200 R MERGE FOR SHELL (I) : 0.49700 REMARK 200 R SYM FOR SHELL (I) : 0.49700 REMARK 200 FOR SHELL : 2.880 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 (%): 35.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.89 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 1000, AMMONIUM PHOSPHATE, PH 8.8, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 40.40100 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 41.56550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 40.40100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 41.56550 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: 7770 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24330 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 KCAL/MOL 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 A 422 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 516 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 526 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 GLU A 322 REMARK 465 SER A 323 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 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 ASP A 141 -177.41 -171.75 REMARK 500 SER A 245 66.80 -113.48 REMARK 500 SER B 245 65.60 -109.55 REMARK 500 PHE B 256 76.04 -116.81 REMARK 500 REMARK 500 REMARK: NULL 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 PGE A 4000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGE A 4001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 4002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 4003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 4004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 4005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 5000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NUP A 2000 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NUP B 2001 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'-MONOPHOSPHATE 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'- REMARK 900 MONOPHOSPHATE 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 DBREF 3N3M A 1 322 UNP Q8IJH3 Q8IJH3_PLAF7 1 323 DBREF 3N3M B 1 322 UNP Q8IJH3 Q8IJH3_PLAF7 1 323 SEQADV 3N3M MET A -18 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M GLY A -17 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M SER A -16 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M SER A -15 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M HIS A -14 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M HIS A -13 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M HIS A -12 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M HIS A -11 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M HIS A -10 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M HIS A -9 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M SER A -8 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M SER A -7 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M GLY A -6 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M LEU A -5 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M VAL A -4 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M PRO A -3 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M ARG A -2 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M GLY A -1 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M SER A 0 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M MET B -18 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M GLY B -17 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M SER B -16 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M SER B -15 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M HIS B -14 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M HIS B -13 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M HIS B -12 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M HIS B -11 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M HIS B -10 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M HIS B -9 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M SER B -8 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M SER B -7 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M GLY B -6 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M LEU B -5 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M VAL B -4 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M PRO B -3 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M ARG B -2 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M GLY B -1 UNP Q8IJH3 EXPRESSION TAG SEQADV 3N3M SER B 0 UNP Q8IJH3 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 PGE A4000 10 HET PGE A4001 10 HET EDO A4003 4 HET GOL A5000 6 HET NUP A2000 22 HET PO4 B3000 5 HET EDO B4002 4 HET EDO B4004 4 HET EDO B4005 4 HET NUP B2001 22 HETNAM PGE TRIETHYLENE GLYCOL HETNAM EDO 1,2-ETHANEDIOL HETNAM GOL GLYCEROL HETNAM NUP 6-AMINOURIDINE 5'-MONOPHOSPHATE HETNAM PO4 PHOSPHATE ION HETSYN EDO ETHYLENE GLYCOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 PGE 2(C6 H14 O4) FORMUL 5 EDO 4(C2 H6 O2) FORMUL 6 GOL C3 H8 O3 FORMUL 7 NUP 2(C9 H14 N3 O9 P) FORMUL 8 PO4 O4 P 3- FORMUL 13 HOH *597(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 LYS A 49 1 9 HELIX 4 4 GLU A 50 VAL A 56 5 7 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 TYR A 108 5 3 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 LEU A 228 1 16 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 MET A 321 1 21 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 LEU B 228 1 16 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 MET B 321 1 21 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 VAL A 240 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 VAL B 190 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 7 LYS B 147 ARG B 150 ASP B 179 GLU B 180 SITE 2 AC1 7 GLU B 181 HOH B 481 HOH B 530 SITE 1 AC2 5 ASN A 299 PRO A 300 MET A 308 TYR A 309 SITE 2 AC2 5 GLN A 312 SITE 1 AC3 8 LYS A 174 LYS A 211 VAL A 215 MET A 224 SITE 2 AC3 8 TYR A 227 TYR A 251 TYR A 255 HOH A 557 SITE 1 AC4 8 ASN A 196 PRO A 197 ILE B 142 GLY B 143 SITE 2 AC4 8 ASN B 171 HOH B 376 HOH B 379 HOH B 410 SITE 1 AC5 8 ILE A 142 GLY A 143 ASN A 171 HOH A 352 SITE 2 AC5 8 HOH A 449 ASN B 196 PRO B 197 HOH B 496 SITE 1 AC6 6 TYR B 178 GLU B 180 ASP B 272 HIS B 274 SITE 2 AC6 6 LYS B 275 HOH B 531 SITE 1 AC7 9 PHE B 123 TYR B 127 THR B 133 LEU B 157 SITE 2 AC7 9 LYS B 158 SER B 159 ASP B 160 HOH B 428 SITE 3 AC7 9 HOH B 443 SITE 1 AC8 8 MET A 1 PHE A 3 ASN A 40 ASP A 160 SITE 2 AC8 8 GLU A 235 HOH A 389 HOH A 535 HOH A 640 SITE 1 AC9 21 ASP A 23 LYS A 102 ASN A 104 ASP A 136 SITE 2 AC9 21 LYS A 138 THR A 194 THR A 195 PRO A 264 SITE 3 AC9 21 GLN A 269 ASN A 291 GLY A 293 ARG A 294 SITE 4 AC9 21 HOH A 330 HOH A 332 HOH A 335 HOH A 340 SITE 5 AC9 21 HOH A 346 HOH A 566 ASP B 141 ILE B 142 SITE 6 AC9 21 THR B 145 SITE 1 BC1 20 ASP A 141 ILE A 142 THR A 145 ASP B 23 SITE 2 BC1 20 LYS B 102 ASN B 104 ASP B 136 LYS B 138 SITE 3 BC1 20 THR B 194 THR B 195 PRO B 264 GLN B 269 SITE 4 BC1 20 GLY B 293 ARG B 294 HOH B 337 HOH B 341 SITE 5 BC1 20 HOH B 345 HOH B 347 HOH B 383 HOH B 580 CRYST1 80.802 83.131 89.983 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 0.012376 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012029 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011113 0.00000