HEADER TRANSFERASE/TRANSFERASE INHIBITOR 18-MAR-14 4PVX TITLE CRYSTAL STRUCTURE OF HUMAN FPPS IN COMPLEX WITH [({4-[4- TITLE 2 (CYCLOPROPYLOXY)PHENYL]PYRIDIN-2-YL}AMINO)METHANEDIYL]BIS(PHOSPHONIC TITLE 3 ACID) COMPND MOL_ID: 1; COMPND 2 MOLECULE: FARNESYL PYROPHOSPHATE SYNTHASE; COMPND 3 CHAIN: F; COMPND 4 SYNONYM: FPP SYNTHASE, FPS, (2E,6E)-FARNESYL DIPHOSPHATE SYNTHASE, COMPND 5 DIMETHYLALLYLTRANSTRANSFERASE, FARNESYL DIPHOSPHATE SYNTHASE, COMPND 6 GERANYLTRANSTRANSFERASE; COMPND 7 EC: 2.5.1.10, 2.5.1.1; COMPND 8 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 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR D.RODIONOV,J.PARK,Y.-S.LIN,Y.S.TSANTRIZOS,A.M.BERGHUIS REVDAT 3 20-SEP-23 4PVX 1 REMARK SEQADV LINK REVDAT 2 25-OCT-17 4PVX 1 JRNL REVDAT 1 15-APR-15 4PVX 0 JRNL AUTH J.PARK,D.RODIONOV,J.W.DE SCHUTTER,Y.S.LIN,Y.S.TSANTRIZOS, JRNL AUTH 2 A.M.BERGHUIS JRNL TITL CRYSTALLOGRAPHIC AND THERMODYNAMIC CHARACTERIZATION OF JRNL TITL 2 PHENYLAMINOPYRIDINE BISPHOSPHONATES BINDING TO HUMAN JRNL TITL 3 FARNESYL PYROPHOSPHATE SYNTHASE. JRNL REF PLOS ONE V. 12 86447 2017 JRNL REFN ESSN 1932-6203 JRNL PMID 29036218 JRNL DOI 10.1371/JOURNAL.PONE.0186447 REMARK 2 REMARK 2 RESOLUTION. 2.18 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 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) : 2.18 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 69.34 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 21774 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 : 0.220 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1167 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) : 2.18 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.24 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1586 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.88 REMARK 3 BIN R VALUE (WORKING SET) : 0.2500 REMARK 3 BIN FREE R VALUE SET COUNT : 84 REMARK 3 BIN FREE R VALUE : 0.2650 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2751 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 35 REMARK 3 SOLVENT ATOMS : 148 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 28.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.97 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.82000 REMARK 3 B22 (A**2) : -2.82000 REMARK 3 B33 (A**2) : 5.63000 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): 0.206 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.180 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.139 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.451 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2859 ; 0.017 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 2699 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3883 ; 1.707 ; 1.981 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6201 ; 0.909 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 346 ; 5.621 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 139 ;36.289 ;24.820 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 487 ;15.101 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;18.670 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 428 ; 0.095 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3242 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 659 ; 0.001 ; 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): 1378 ; 1.612 ; 2.330 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1377 ; 1.610 ; 2.328 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1723 ; 2.321 ; 3.484 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1724 ; 2.320 ; 3.486 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1481 ; 2.287 ; 2.631 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1481 ; 2.286 ; 2.631 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2157 ; 3.515 ; 3.837 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3541 ; 5.438 ;19.936 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3542 ; 5.438 ;19.942 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 : 8 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 8 F 28 REMARK 3 ORIGIN FOR THE GROUP (A): -1.0368 29.7909 7.9215 REMARK 3 T TENSOR REMARK 3 T11: 0.2052 T22: 0.3811 REMARK 3 T33: 0.2593 T12: 0.1046 REMARK 3 T13: 0.0385 T23: -0.0953 REMARK 3 L TENSOR REMARK 3 L11: 9.3435 L22: 4.7181 REMARK 3 L33: 12.1301 L12: -3.3936 REMARK 3 L13: 8.4382 L23: -3.9273 REMARK 3 S TENSOR REMARK 3 S11: -0.1590 S12: -0.7496 S13: 0.2780 REMARK 3 S21: -0.0010 S22: 0.3002 S23: 0.5392 REMARK 3 S31: -0.4937 S32: -0.9797 S33: -0.1412 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 29 F 35 REMARK 3 ORIGIN FOR THE GROUP (A): 10.9711 17.3527 20.3759 REMARK 3 T TENSOR REMARK 3 T11: 0.4173 T22: 0.5267 REMARK 3 T33: 0.4073 T12: 0.0248 REMARK 3 T13: -0.0153 T23: -0.0386 REMARK 3 L TENSOR REMARK 3 L11: 4.5813 L22: 0.6844 REMARK 3 L33: 1.5835 L12: -1.7583 REMARK 3 L13: 2.6740 L23: -1.0407 REMARK 3 S TENSOR REMARK 3 S11: -0.0534 S12: -0.3995 S13: -0.3849 REMARK 3 S21: 0.0038 S22: 0.2121 S23: 0.1149 REMARK 3 S31: -0.0064 S32: -0.3113 S33: -0.1588 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 36 F 78 REMARK 3 ORIGIN FOR THE GROUP (A): 3.0250 25.7938 6.0481 REMARK 3 T TENSOR REMARK 3 T11: 0.0677 T22: 0.1845 REMARK 3 T33: 0.1804 T12: 0.0473 REMARK 3 T13: 0.0489 T23: -0.0201 REMARK 3 L TENSOR REMARK 3 L11: 4.8945 L22: 0.5357 REMARK 3 L33: 2.7661 L12: 0.2154 REMARK 3 L13: 3.1117 L23: 0.3250 REMARK 3 S TENSOR REMARK 3 S11: 0.0365 S12: -0.4237 S13: 0.2994 REMARK 3 S21: 0.0702 S22: -0.1016 S23: 0.2431 REMARK 3 S31: 0.0243 S32: -0.3703 S33: 0.0651 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 79 F 147 REMARK 3 ORIGIN FOR THE GROUP (A): 12.8556 27.0900 3.9777 REMARK 3 T TENSOR REMARK 3 T11: 0.0392 T22: 0.0813 REMARK 3 T33: 0.0162 T12: 0.0233 REMARK 3 T13: 0.0086 T23: -0.0134 REMARK 3 L TENSOR REMARK 3 L11: 3.4165 L22: 1.7855 REMARK 3 L33: 1.0179 L12: 1.4742 REMARK 3 L13: 0.2934 L23: -0.3393 REMARK 3 S TENSOR REMARK 3 S11: 0.0853 S12: -0.3693 S13: 0.1132 REMARK 3 S21: 0.2200 S22: -0.0409 S23: 0.1277 REMARK 3 S31: -0.0760 S32: -0.1611 S33: -0.0444 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : F 148 F 181 REMARK 3 ORIGIN FOR THE GROUP (A): 11.8137 18.1840 -6.6237 REMARK 3 T TENSOR REMARK 3 T11: 0.0476 T22: 0.0291 REMARK 3 T33: 0.0404 T12: 0.0269 REMARK 3 T13: -0.0391 T23: -0.0148 REMARK 3 L TENSOR REMARK 3 L11: 7.6470 L22: 5.1333 REMARK 3 L33: 4.2351 L12: 4.7816 REMARK 3 L13: -3.8603 L23: -3.7272 REMARK 3 S TENSOR REMARK 3 S11: 0.0706 S12: -0.0506 S13: -0.0787 REMARK 3 S21: -0.0969 S22: 0.0188 S23: 0.1779 REMARK 3 S31: 0.0935 S32: -0.0314 S33: -0.0893 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : F 182 F 236 REMARK 3 ORIGIN FOR THE GROUP (A): 7.7400 24.5115 -15.8471 REMARK 3 T TENSOR REMARK 3 T11: 0.0988 T22: 0.0787 REMARK 3 T33: 0.0426 T12: 0.0252 REMARK 3 T13: -0.0444 T23: -0.0117 REMARK 3 L TENSOR REMARK 3 L11: 4.9700 L22: 3.0748 REMARK 3 L33: 2.0458 L12: 2.7880 REMARK 3 L13: -1.1893 L23: -1.3573 REMARK 3 S TENSOR REMARK 3 S11: -0.1033 S12: 0.3162 S13: -0.2098 REMARK 3 S21: -0.4213 S22: 0.0763 S23: 0.0621 REMARK 3 S31: 0.0953 S32: -0.0345 S33: 0.0269 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : F 237 F 315 REMARK 3 ORIGIN FOR THE GROUP (A): 18.6736 44.0996 -18.6478 REMARK 3 T TENSOR REMARK 3 T11: 0.1334 T22: 0.0956 REMARK 3 T33: 0.1017 T12: -0.0023 REMARK 3 T13: -0.0242 T23: 0.0692 REMARK 3 L TENSOR REMARK 3 L11: 3.4508 L22: 2.5432 REMARK 3 L33: 2.3912 L12: 0.1432 REMARK 3 L13: -0.0196 L23: -0.0267 REMARK 3 S TENSOR REMARK 3 S11: 0.0082 S12: 0.3541 S13: 0.5187 REMARK 3 S21: -0.2555 S22: 0.0310 S23: 0.0294 REMARK 3 S31: -0.3073 S32: 0.1099 S33: -0.0392 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : F 316 F 350 REMARK 3 ORIGIN FOR THE GROUP (A): -4.5847 31.7937 -17.3730 REMARK 3 T TENSOR REMARK 3 T11: 0.0727 T22: 0.1698 REMARK 3 T33: 0.1203 T12: 0.0248 REMARK 3 T13: -0.0558 T23: 0.0263 REMARK 3 L TENSOR REMARK 3 L11: 4.7211 L22: 3.3444 REMARK 3 L33: 3.6401 L12: 1.4476 REMARK 3 L13: -1.5874 L23: -2.8261 REMARK 3 S TENSOR REMARK 3 S11: 0.0752 S12: 0.0353 S13: 0.3843 REMARK 3 S21: 0.0886 S22: 0.0195 S23: 0.3083 REMARK 3 S31: -0.2175 S32: 0.0273 S33: -0.0947 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK 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 4PVX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-MAR-14. REMARK 100 THE DEPOSITION ID IS D_1000085285. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-JAN-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : RIGAKU VARIMAX-HF REMARK 200 OPTICS : RIGAKU VARIMAX-HF REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944+ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22981 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.180 REMARK 200 RESOLUTION RANGE LOW (A) : 69.340 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 19.70 REMARK 200 R MERGE (I) : 0.06200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 53.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.18 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.24 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.9 REMARK 200 DATA REDUNDANCY IN SHELL : 10.90 REMARK 200 R MERGE FOR SHELL (I) : 0.65300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: REFMAC 5.8.0049 REMARK 200 STARTING MODEL: PDB ENTRY 4H5C REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.54 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5.6% PEG 4000, 30% GLYCEROL, 0.07M REMARK 280 SODIUM ACETATE, PH 4.6, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 295K 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 34.67000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 55.63000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 55.63000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 17.33500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 55.63000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 55.63000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 52.00500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 55.63000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.63000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 17.33500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 55.63000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.63000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 52.00500 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 34.67000 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: 5440 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26820 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -82.0 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 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 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 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 15 CG CD OE1 NE2 REMARK 470 LYS F 57 CD CE NZ REMARK 470 GLN F 180 CG CD OE1 NE2 REMARK 470 LYS F 223 CE NZ REMARK 470 LYS F 293 CD CE NZ REMARK 470 ARG F 346 NE CZ NH1 NH2 REMARK 470 LYS F 350 CD CE NZ 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 141 NE - CZ - NH1 ANGL. DEV. = -3.9 DEGREES REMARK 500 ARG F 192 NE - CZ - NH1 ANGL. DEV. = 3.2 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 ASP F 31 -9.77 -52.95 REMARK 500 GLN F 77 59.23 -97.98 REMARK 500 VAL F 124 -70.14 -103.33 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG F 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP F 103 OD1 REMARK 620 2 ASP F 107 OD2 83.5 REMARK 620 3 YS1 F 404 OAK 95.3 84.1 REMARK 620 4 HOH F 501 O 90.3 100.6 173.1 REMARK 620 5 HOH F 502 O 84.5 167.1 92.5 84.0 REMARK 620 6 HOH F 503 O 172.3 101.6 91.0 83.2 90.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG F 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP F 103 OD2 REMARK 620 2 ASP F 107 OD2 90.1 REMARK 620 3 YS1 F 404 OAP 90.9 172.7 REMARK 620 4 YS1 F 404 OAK 88.5 79.8 93.0 REMARK 620 5 HOH F 504 O 85.8 95.9 91.4 172.9 REMARK 620 6 HOH F 505 O 175.7 86.3 92.9 93.3 92.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG F 403 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP F 243 OD2 REMARK 620 2 YS1 F 404 OAO 96.8 REMARK 620 3 YS1 F 404 OAL 98.8 91.1 REMARK 620 4 HOH F 522 O 167.6 93.4 88.0 REMARK 620 5 HOH F 523 O 90.0 92.2 170.2 82.5 REMARK 620 6 HOH F 524 O 86.5 175.7 91.1 83.1 85.0 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG F 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG F 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG F 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE YS1 F 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL F 405 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4DEM RELATED DB: PDB REMARK 900 RELATED ID: 4NFI RELATED DB: PDB REMARK 900 RELATED ID: 4PVY RELATED DB: PDB DBREF 4PVX F 1 353 UNP P14324 FPPS_HUMAN 67 419 SEQADV 4PVX MET F -21 UNP P14324 EXPRESSION TAG SEQADV 4PVX GLY F -20 UNP P14324 EXPRESSION TAG SEQADV 4PVX SER F -19 UNP P14324 EXPRESSION TAG SEQADV 4PVX SER F -18 UNP P14324 EXPRESSION TAG SEQADV 4PVX HIS F -17 UNP P14324 EXPRESSION TAG SEQADV 4PVX HIS F -16 UNP P14324 EXPRESSION TAG SEQADV 4PVX HIS F -15 UNP P14324 EXPRESSION TAG SEQADV 4PVX HIS F -14 UNP P14324 EXPRESSION TAG SEQADV 4PVX HIS F -13 UNP P14324 EXPRESSION TAG SEQADV 4PVX HIS F -12 UNP P14324 EXPRESSION TAG SEQADV 4PVX SER F -11 UNP P14324 EXPRESSION TAG SEQADV 4PVX SER F -10 UNP P14324 EXPRESSION TAG SEQADV 4PVX GLY F -9 UNP P14324 EXPRESSION TAG SEQADV 4PVX ARG F -8 UNP P14324 EXPRESSION TAG SEQADV 4PVX GLU F -7 UNP P14324 EXPRESSION TAG SEQADV 4PVX ASN F -6 UNP P14324 EXPRESSION TAG SEQADV 4PVX LEU F -5 UNP P14324 EXPRESSION TAG SEQADV 4PVX TYR F -4 UNP P14324 EXPRESSION TAG SEQADV 4PVX PHE F -3 UNP P14324 EXPRESSION TAG SEQADV 4PVX GLN F -2 UNP P14324 EXPRESSION TAG SEQADV 4PVX GLY F -1 UNP P14324 EXPRESSION TAG SEQADV 4PVX 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 MG F 401 1 HET MG F 402 1 HET MG F 403 1 HET YS1 F 404 26 HET GOL F 405 6 HETNAM MG MAGNESIUM ION HETNAM YS1 [({4-[4-(CYCLOPROPYLOXY)PHENYL]PYRIDIN-2-YL}AMINO) HETNAM 2 YS1 METHANEDIYL]BIS(PHOSPHONIC ACID) HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 MG 3(MG 2+) FORMUL 5 YS1 C15 H18 N2 O7 P2 FORMUL 6 GOL C3 H8 O3 FORMUL 7 HOH *148(H2 O) HELIX 1 1 ASP F 8 ASP F 31 1 24 HELIX 2 2 HIS F 35 GLU F 37 5 3 HELIX 3 3 ILE F 38 ALA F 53 1 16 HELIX 4 4 TYR F 58 VAL F 72 1 15 HELIX 5 5 GLU F 73 GLN F 77 5 5 HELIX 6 6 ASP F 78 SER F 108 1 31 HELIX 7 7 TRP F 118 LYS F 121 5 4 HELIX 8 8 VAL F 124 LEU F 126 5 3 HELIX 9 9 ASP F 127 ARG F 148 1 22 HELIX 10 10 TYR F 152 ALA F 178 1 27 HELIX 11 11 ASP F 184 PHE F 188 5 5 HELIX 12 12 THR F 189 THR F 201 1 13 HELIX 13 13 THR F 201 PHE F 206 1 6 HELIX 14 14 PHE F 206 ALA F 217 1 12 HELIX 15 15 GLY F 221 GLY F 250 1 30 HELIX 16 16 ASP F 251 GLY F 256 1 6 HELIX 17 17 SER F 268 ALA F 278 1 11 HELIX 18 18 THR F 279 TYR F 290 1 12 HELIX 19 19 GLU F 294 LEU F 308 1 15 HELIX 20 20 ASP F 309 ALA F 333 1 25 HELIX 21 21 PRO F 337 TYR F 349 1 13 SHEET 1 A 2 THR F 111 ARG F 112 0 SHEET 2 A 2 GLN F 115 ILE F 116 -1 O GLN F 115 N ARG F 112 LINK OD1 ASP F 103 MG MG F 401 1555 1555 2.11 LINK OD2 ASP F 103 MG MG F 402 1555 1555 2.02 LINK OD2 ASP F 107 MG MG F 401 1555 1555 2.14 LINK OD2 ASP F 107 MG MG F 402 1555 1555 2.17 LINK OD2 ASP F 243 MG MG F 403 1555 1555 2.10 LINK MG MG F 401 OAK YS1 F 404 1555 1555 2.05 LINK MG MG F 401 O HOH F 501 1555 1555 2.11 LINK MG MG F 401 O HOH F 502 1555 1555 2.08 LINK MG MG F 401 O HOH F 503 1555 1555 2.22 LINK MG MG F 402 OAP YS1 F 404 1555 1555 2.12 LINK MG MG F 402 OAK YS1 F 404 1555 1555 2.20 LINK MG MG F 402 O HOH F 504 1555 1555 2.14 LINK MG MG F 402 O HOH F 505 1555 1555 2.05 LINK MG MG F 403 OAO YS1 F 404 1555 1555 1.91 LINK MG MG F 403 OAL YS1 F 404 1555 1555 2.02 LINK MG MG F 403 O HOH F 522 1555 1555 2.11 LINK MG MG F 403 O HOH F 523 1555 1555 2.17 LINK MG MG F 403 O HOH F 524 1555 1555 2.21 CISPEP 1 ALA F 334 PRO F 335 0 6.40 SITE 1 AC1 7 ASP F 103 ASP F 107 MG F 402 YS1 F 404 SITE 2 AC1 7 HOH F 501 HOH F 502 HOH F 503 SITE 1 AC2 6 ASP F 103 ASP F 107 MG F 401 YS1 F 404 SITE 2 AC2 6 HOH F 504 HOH F 505 SITE 1 AC3 5 ASP F 243 YS1 F 404 HOH F 522 HOH F 523 SITE 2 AC3 5 HOH F 524 SITE 1 AC4 29 PHE F 99 LEU F 100 ALA F 102 ASP F 103 SITE 2 AC4 29 MET F 106 ASP F 107 ARG F 112 ASN F 130 SITE 3 AC4 29 ASN F 133 THR F 167 GLN F 171 LYS F 200 SITE 4 AC4 29 THR F 201 ASP F 243 LYS F 257 MG F 401 SITE 5 AC4 29 MG F 402 MG F 403 HOH F 502 HOH F 503 SITE 6 AC4 29 HOH F 504 HOH F 505 HOH F 507 HOH F 511 SITE 7 AC4 29 HOH F 522 HOH F 523 HOH F 524 HOH F 527 SITE 8 AC4 29 HOH F 534 SITE 1 AC5 7 LYS F 144 GLU F 158 LEU F 161 GLN F 162 SITE 2 AC5 7 HOH F 542 HOH F 543 HOH F 545 CRYST1 111.260 111.260 69.340 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 0.008988 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008988 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014422 0.00000