HEADER TRANSFERASE/TRANSFERASE INHIBITOR 10-MAY-16 5JUZ TITLE CRYSTAL STRUCTURE OF HUMAN FPPS IN COMPLEX WITH AN ALLOSTERIC TITLE 2 INHIBITOR CL-06-057 COMPND MOL_ID: 1; COMPND 2 MOLECULE: FARNESYL PYROPHOSPHATE SYNTHASE; COMPND 3 CHAIN: F; COMPND 4 FRAGMENT: UNP RESIDUES 67-419; COMPND 5 SYNONYM: FPS,(2E,6E)-FARNESYL DIPHOSPHATE SYNTHASE, COMPND 6 DIMETHYLALLYLTRANSTRANSFERASE,FARNESYL DIPHOSPHATE SYNTHASE, COMPND 7 GERANYLTRANSTRANSFERASE; COMPND 8 EC: 2.5.1.10,2.5.1.1; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: FDPS, FPS, KIAA1293; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRANSFERASE, TRANSFERASE-TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.PARK,A.MAGDER,C.Y.LEUNG,Y.S.TSANTRIZOS,A.M.BERGHUIS REVDAT 3 27-SEP-23 5JUZ 1 REMARK REVDAT 2 22-MAR-17 5JUZ 1 JRNL REVDAT 1 15-MAR-17 5JUZ 0 JRNL AUTH J.PARK,C.Y.LEUNG,A.N.MATRALIS,C.M.LACBAY,M.TSAKOS, JRNL AUTH 2 G.FERNANDEZ DE TROCONIZ,A.M.BERGHUIS,Y.S.TSANTRIZOS JRNL TITL PHARMACOPHORE MAPPING OF THIENOPYRIMIDINE-BASED JRNL TITL 2 MONOPHOSPHONATE (THP-MP) INHIBITORS OF THE HUMAN FARNESYL JRNL TITL 3 PYROPHOSPHATE SYNTHASE. JRNL REF J. MED. CHEM. V. 60 2119 2017 JRNL REFN ISSN 1520-4804 JRNL PMID 28208018 JRNL DOI 10.1021/ACS.JMEDCHEM.6B01888 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0123 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 78.42 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 18322 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) : 0.183 REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 951 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1333 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.50 REMARK 3 BIN R VALUE (WORKING SET) : 0.3020 REMARK 3 BIN FREE R VALUE SET COUNT : 64 REMARK 3 BIN FREE R VALUE : 0.2580 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2610 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 33 REMARK 3 SOLVENT ATOMS : 95 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 46.93 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 64.52 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.84000 REMARK 3 B22 (A**2) : -2.84000 REMARK 3 B33 (A**2) : 5.69000 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): 0.269 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.215 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.213 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 19.608 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.942 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2701 ; 0.023 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 2500 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3679 ; 2.135 ; 1.982 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5709 ; 1.168 ; 3.003 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 333 ; 6.472 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 119 ;35.485 ;24.370 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 421 ;15.556 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;22.427 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 413 ; 0.113 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3076 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 627 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 1341 ; 1.875 ; 3.381 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1340 ; 1.870 ; 3.380 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1671 ; 2.986 ; 5.060 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1672 ; 2.985 ; 5.061 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1359 ; 2.515 ; 3.666 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1360 ; 2.515 ; 3.669 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2008 ; 3.923 ; 5.432 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3256 ; 6.675 ;28.820 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3257 ; 6.674 ;28.834 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : F 10 F 30 REMARK 3 ORIGIN FOR THE GROUP (A): 2.0175 81.3373 9.9650 REMARK 3 T TENSOR REMARK 3 T11: 0.2723 T22: 0.5273 REMARK 3 T33: 0.5076 T12: -0.2327 REMARK 3 T13: -0.2076 T23: -0.0427 REMARK 3 L TENSOR REMARK 3 L11: 9.4200 L22: 5.7900 REMARK 3 L33: 7.3457 L12: 2.2272 REMARK 3 L13: -1.5983 L23: 1.3814 REMARK 3 S TENSOR REMARK 3 S11: -0.1098 S12: 1.1292 S13: -0.3153 REMARK 3 S21: -0.5802 S22: 0.2617 S23: 0.7854 REMARK 3 S31: 0.7137 S32: -1.5476 S33: -0.1519 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : F 35 F 179 REMARK 3 ORIGIN FOR THE GROUP (A): 10.8977 85.0928 17.5253 REMARK 3 T TENSOR REMARK 3 T11: 0.0572 T22: 0.0558 REMARK 3 T33: 0.1911 T12: -0.0407 REMARK 3 T13: -0.0339 T23: 0.0039 REMARK 3 L TENSOR REMARK 3 L11: 4.6359 L22: 2.6937 REMARK 3 L33: 2.6980 L12: -0.2592 REMARK 3 L13: -1.9290 L23: -0.0156 REMARK 3 S TENSOR REMARK 3 S11: -0.0685 S12: 0.2243 S13: -0.2440 REMARK 3 S21: -0.3237 S22: 0.0849 S23: 0.3739 REMARK 3 S31: 0.2076 S32: -0.3733 S33: -0.0164 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : F 180 F 277 REMARK 3 ORIGIN FOR THE GROUP (A): 10.8044 79.2446 36.3063 REMARK 3 T TENSOR REMARK 3 T11: 0.1055 T22: 0.2464 REMARK 3 T33: 0.2907 T12: 0.0191 REMARK 3 T13: 0.0614 T23: 0.0526 REMARK 3 L TENSOR REMARK 3 L11: 5.9363 L22: 5.1916 REMARK 3 L33: 4.4246 L12: -1.4691 REMARK 3 L13: 0.3437 L23: -3.0534 REMARK 3 S TENSOR REMARK 3 S11: -0.0158 S12: -0.5294 S13: -0.4806 REMARK 3 S21: 0.2431 S22: -0.1773 S23: -0.0985 REMARK 3 S31: 0.2928 S32: 0.5249 S33: 0.1931 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : F 278 F 350 REMARK 3 ORIGIN FOR THE GROUP (A): 8.1549 72.1584 41.9704 REMARK 3 T TENSOR REMARK 3 T11: 0.2875 T22: 0.3172 REMARK 3 T33: 0.4847 T12: 0.0365 REMARK 3 T13: 0.0744 T23: 0.1250 REMARK 3 L TENSOR REMARK 3 L11: 6.2212 L22: 5.4230 REMARK 3 L33: 3.3274 L12: -3.5175 REMARK 3 L13: 1.3028 L23: -2.3253 REMARK 3 S TENSOR REMARK 3 S11: 0.0860 S12: -0.2627 S13: -0.4417 REMARK 3 S21: 0.2330 S22: -0.3168 S23: -0.3701 REMARK 3 S31: 0.5529 S32: 0.5933 S33: 0.2308 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 5JUZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-MAY-16. REMARK 100 THE DEPOSITION ID IS D_1000221263. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-APR-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL 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) : 0.97949 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19304 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 78.420 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 9.300 REMARK 200 R MERGE (I) : 0.09800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.46 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 9.40 REMARK 200 R MERGE FOR SHELL (I) : 0.93100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: REFMAC 5.8.0123 REMARK 200 STARTING MODEL: 4QXS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.17 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.6 M SODIUM PHOSPHATE, 0.6 M REMARK 280 POTASSIUM PHOSPHATE, 25% GLYCEROL, 0.075 M HEPES, PH 7.5, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 295.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 38.50000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 55.45000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 55.45000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 19.25000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 55.45000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 55.45000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 57.75000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 55.45000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.45000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 19.25000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 55.45000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.45000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 57.75000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 38.50000 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: 4280 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27880 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -64.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: F 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 350 BIOMT1 2 0.000000 -1.000000 0.000000 110.90000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 110.90000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 38.50000 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 F -21 REMARK 465 GLY F -20 REMARK 465 SER F -19 REMARK 465 SER F -18 REMARK 465 HIS F -17 REMARK 465 HIS F -16 REMARK 465 HIS F -15 REMARK 465 HIS F -14 REMARK 465 HIS F -13 REMARK 465 HIS F -12 REMARK 465 SER F -11 REMARK 465 SER F -10 REMARK 465 GLY F -9 REMARK 465 ARG F -8 REMARK 465 GLU F -7 REMARK 465 ASN F -6 REMARK 465 LEU F -5 REMARK 465 TYR F -4 REMARK 465 PHE F -3 REMARK 465 GLN F -2 REMARK 465 GLY F -1 REMARK 465 HIS F 0 REMARK 465 MET F 1 REMARK 465 ASN F 2 REMARK 465 GLY F 3 REMARK 465 ASP F 4 REMARK 465 GLN F 5 REMARK 465 ASN F 6 REMARK 465 SER F 7 REMARK 465 ASP F 8 REMARK 465 VAL F 9 REMARK 465 ASP F 31 REMARK 465 GLU F 32 REMARK 465 MET F 33 REMARK 465 GLY F 34 REMARK 465 GLY F 181 REMARK 465 ARG F 351 REMARK 465 ARG F 352 REMARK 465 LYS F 353 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLN F 12 CG CD OE1 NE2 REMARK 470 GLU F 13 CG CD OE1 OE2 REMARK 470 LYS F 14 CE NZ REMARK 470 GLN F 15 CG CD OE1 NE2 REMARK 470 ASP F 16 CG OD1 OD2 REMARK 470 GLN F 19 CD OE1 NE2 REMARK 470 HIS F 35 CG ND1 CD2 CE1 NE2 REMARK 470 GLU F 37 CG CD OE1 OE2 REMARK 470 LYS F 57 CE NZ REMARK 470 GLU F 73 CG CD OE1 OE2 REMARK 470 ARG F 75 CG CD NE CZ NH1 NH2 REMARK 470 LYS F 76 CE NZ REMARK 470 ASN F 182 CG OD1 ND2 REMARK 470 VAL F 183 CG1 CG2 REMARK 470 VAL F 186 CG1 CG2 REMARK 470 ARG F 187 CG CD NE CZ NH1 NH2 REMARK 470 LYS F 191 CD CE NZ REMARK 470 LYS F 257 CG CD CE NZ REMARK 470 ILE F 258 CG1 CG2 CD1 REMARK 470 LYS F 266 NZ REMARK 470 GLU F 281 CG CD OE1 OE2 REMARK 470 GLN F 284 CG CD OE1 NE2 REMARK 470 LYS F 287 CG CD CE NZ REMARK 470 GLU F 288 CG CD OE1 OE2 REMARK 470 GLN F 292 CD OE1 NE2 REMARK 470 LYS F 293 CG CD CE NZ REMARK 470 GLU F 294 CG CD OE1 OE2 REMARK 470 GLU F 296 CG CD OE1 OE2 REMARK 470 LYS F 297 CG CD CE NZ REMARK 470 ARG F 300 CG CD NE CZ NH1 NH2 REMARK 470 GLU F 307 CG CD OE1 OE2 REMARK 470 LYS F 350 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU F 47 CD GLU F 47 OE2 0.072 REMARK 500 ASP F 107 CB ASP F 107 CG -0.134 REMARK 500 PHE F 203 CG PHE F 203 CD2 0.105 REMARK 500 SER F 323 CB SER F 323 OG -0.083 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG F 69 NE - CZ - NH1 ANGL. DEV. = -4.1 DEGREES REMARK 500 ARG F 84 NE - CZ - NH1 ANGL. DEV. = -5.0 DEGREES REMARK 500 ARG F 84 NE - CZ - NH2 ANGL. DEV. = 4.0 DEGREES REMARK 500 ASP F 107 CB - CA - C ANGL. DEV. = -13.3 DEGREES REMARK 500 ASP F 107 CB - CG - OD1 ANGL. DEV. = -6.1 DEGREES REMARK 500 ARG F 141 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG F 141 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 REMARK 500 REMARK: NULL 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 GLN F 77 64.50 -103.03 REMARK 500 VAL F 124 -71.09 -104.49 REMARK 500 ALA F 178 77.30 -119.88 REMARK 500 ASN F 289 -24.21 -142.70 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 CL F 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL F 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue YL4 F 403 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5JV2 RELATED DB: PDB REMARK 900 RELATED ID: 5JV1 RELATED DB: PDB REMARK 900 RELATED ID: 5JV0 RELATED DB: PDB DBREF 5JUZ F 1 353 UNP P14324 FPPS_HUMAN 67 419 SEQADV 5JUZ MET F -21 UNP P14324 INITIATING METHIONINE SEQADV 5JUZ GLY F -20 UNP P14324 EXPRESSION TAG SEQADV 5JUZ SER F -19 UNP P14324 EXPRESSION TAG SEQADV 5JUZ SER F -18 UNP P14324 EXPRESSION TAG SEQADV 5JUZ HIS F -17 UNP P14324 EXPRESSION TAG SEQADV 5JUZ HIS F -16 UNP P14324 EXPRESSION TAG SEQADV 5JUZ HIS F -15 UNP P14324 EXPRESSION TAG SEQADV 5JUZ HIS F -14 UNP P14324 EXPRESSION TAG SEQADV 5JUZ HIS F -13 UNP P14324 EXPRESSION TAG SEQADV 5JUZ HIS F -12 UNP P14324 EXPRESSION TAG SEQADV 5JUZ SER F -11 UNP P14324 EXPRESSION TAG SEQADV 5JUZ SER F -10 UNP P14324 EXPRESSION TAG SEQADV 5JUZ GLY F -9 UNP P14324 EXPRESSION TAG SEQADV 5JUZ ARG F -8 UNP P14324 EXPRESSION TAG SEQADV 5JUZ GLU F -7 UNP P14324 EXPRESSION TAG SEQADV 5JUZ ASN F -6 UNP P14324 EXPRESSION TAG SEQADV 5JUZ LEU F -5 UNP P14324 EXPRESSION TAG SEQADV 5JUZ TYR F -4 UNP P14324 EXPRESSION TAG SEQADV 5JUZ PHE F -3 UNP P14324 EXPRESSION TAG SEQADV 5JUZ GLN F -2 UNP P14324 EXPRESSION TAG SEQADV 5JUZ GLY F -1 UNP P14324 EXPRESSION TAG SEQADV 5JUZ HIS F 0 UNP P14324 EXPRESSION TAG SEQRES 1 F 375 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 F 375 ARG GLU ASN LEU TYR PHE GLN GLY HIS MET ASN GLY ASP SEQRES 3 F 375 GLN ASN SER ASP VAL TYR ALA GLN GLU LYS GLN ASP PHE SEQRES 4 F 375 VAL GLN HIS PHE SER GLN ILE VAL ARG VAL LEU THR GLU SEQRES 5 F 375 ASP GLU MET GLY HIS PRO GLU ILE GLY ASP ALA ILE ALA SEQRES 6 F 375 ARG LEU LYS GLU VAL LEU GLU TYR ASN ALA ILE GLY GLY SEQRES 7 F 375 LYS TYR ASN ARG GLY LEU THR VAL VAL VAL ALA PHE ARG SEQRES 8 F 375 GLU LEU VAL GLU PRO ARG LYS GLN ASP ALA ASP SER LEU SEQRES 9 F 375 GLN ARG ALA TRP THR VAL GLY TRP CYS VAL GLU LEU LEU SEQRES 10 F 375 GLN ALA PHE PHE LEU VAL ALA ASP ASP ILE MET ASP SER SEQRES 11 F 375 SER LEU THR ARG ARG GLY GLN ILE CYS TRP TYR GLN LYS SEQRES 12 F 375 PRO GLY VAL GLY LEU ASP ALA ILE ASN ASP ALA ASN LEU SEQRES 13 F 375 LEU GLU ALA CYS ILE TYR ARG LEU LEU LYS LEU TYR CYS SEQRES 14 F 375 ARG GLU GLN PRO TYR TYR LEU ASN LEU ILE GLU LEU PHE SEQRES 15 F 375 LEU GLN SER SER TYR GLN THR GLU ILE GLY GLN THR LEU SEQRES 16 F 375 ASP LEU LEU THR ALA PRO GLN GLY ASN VAL ASP LEU VAL SEQRES 17 F 375 ARG PHE THR GLU LYS ARG TYR LYS SER ILE VAL LYS TYR SEQRES 18 F 375 LYS THR ALA PHE TYR SER PHE TYR LEU PRO ILE ALA ALA SEQRES 19 F 375 ALA MET TYR MET ALA GLY ILE ASP GLY GLU LYS GLU HIS SEQRES 20 F 375 ALA ASN ALA LYS LYS ILE LEU LEU GLU MET GLY GLU PHE SEQRES 21 F 375 PHE GLN ILE GLN ASP ASP TYR LEU ASP LEU PHE GLY ASP SEQRES 22 F 375 PRO SER VAL THR GLY LYS ILE GLY THR ASP ILE GLN ASP SEQRES 23 F 375 ASN LYS CYS SER TRP LEU VAL VAL GLN CYS LEU GLN ARG SEQRES 24 F 375 ALA THR PRO GLU GLN TYR GLN ILE LEU LYS GLU ASN TYR SEQRES 25 F 375 GLY GLN LYS GLU ALA GLU LYS VAL ALA ARG VAL LYS ALA SEQRES 26 F 375 LEU TYR GLU GLU LEU ASP LEU PRO ALA VAL PHE LEU GLN SEQRES 27 F 375 TYR GLU GLU ASP SER TYR SER HIS ILE MET ALA LEU ILE SEQRES 28 F 375 GLU GLN TYR ALA ALA PRO LEU PRO PRO ALA VAL PHE LEU SEQRES 29 F 375 GLY LEU ALA ARG LYS ILE TYR LYS ARG ARG LYS HET CL F 401 1 HET CL F 402 1 HET YL4 F 403 31 HETNAM CL CHLORIDE ION HETNAM YL4 [(R)-(2,3-DIHYDRO-1-BENZOFURAN-5-YL){[6-(4- HETNAM 2 YL4 METHYLPHENYL)THIENO[2,3-D]PYRIMIDIN-4- HETNAM 3 YL4 YL]AMINO}METHYL]PHOSPHONIC ACID FORMUL 2 CL 2(CL 1-) FORMUL 4 YL4 C22 H20 N3 O4 P S FORMUL 5 HOH *95(H2 O) HELIX 1 AA1 GLU F 13 THR F 29 1 17 HELIX 2 AA2 GLU F 30 GLU F 30 5 1 HELIX 3 AA3 HIS F 35 GLU F 37 5 3 HELIX 4 AA4 ILE F 38 ILE F 54 1 17 HELIX 5 AA5 TYR F 58 VAL F 72 1 15 HELIX 6 AA6 GLU F 73 GLN F 77 5 5 HELIX 7 AA7 ASP F 78 ASP F 107 1 30 HELIX 8 AA8 TRP F 118 LYS F 121 5 4 HELIX 9 AA9 VAL F 124 LEU F 126 5 3 HELIX 10 AB1 ASP F 127 ARG F 148 1 22 HELIX 11 AB2 TYR F 152 ALA F 178 1 27 HELIX 12 AB3 THR F 189 THR F 201 1 13 HELIX 13 AB4 THR F 201 ALA F 217 1 17 HELIX 14 AB5 GLY F 221 GLY F 250 1 30 HELIX 15 AB6 ASP F 251 GLY F 256 1 6 HELIX 16 AB7 SER F 268 ARG F 277 1 10 HELIX 17 AB8 THR F 279 LYS F 287 1 9 HELIX 18 AB9 GLU F 294 LEU F 308 1 15 HELIX 19 AC1 ASP F 309 ALA F 333 1 25 HELIX 20 AC2 PRO F 337 LYS F 350 1 14 SHEET 1 AA1 2 THR F 111 ARG F 112 0 SHEET 2 AA1 2 GLN F 115 ILE F 116 -1 O GLN F 115 N ARG F 112 CISPEP 1 ALA F 334 PRO F 335 0 5.54 SITE 1 AC1 2 ASP F 80 ARG F 84 SITE 1 AC2 2 LYS F 57 ASN F 59 SITE 1 AC3 9 LYS F 57 ASN F 59 ARG F 113 SER F 205 SITE 2 AC3 9 PHE F 206 PHE F 239 ASP F 243 LEU F 344 SITE 3 AC3 9 HOH F 559 CRYST1 110.900 110.900 77.000 90.00 90.00 90.00 P 41 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 0.009017 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009017 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012987 0.00000