HEADER TRANSFERASE/TRANSFERASE INHIBITOR 16-MAR-19 6OAH TITLE CRYSTAL STRUCTURE OF HUMAN FPPS IN COMPLEX WITH AN ALLOSTERIC TITLE 2 INHIBITOR YF-02-78 COMPND MOL_ID: 1; COMPND 2 MOLECULE: FARNESYL PYROPHOSPHATE SYNTHASE; COMPND 3 CHAIN: F; COMPND 4 FRAGMENT: 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.M.BERGHUIS REVDAT 4 11-OCT-23 6OAH 1 REMARK REVDAT 3 08-JAN-20 6OAH 1 REMARK REVDAT 2 27-NOV-19 6OAH 1 JRNL REVDAT 1 06-NOV-19 6OAH 0 JRNL AUTH Y.FENG,J.PARK,S.G.LI,R.BOUTIN,P.VIERECK,M.A.SCHILLING, JRNL AUTH 2 A.M.BERGHUIS,Y.S.TSANTRIZOS JRNL TITL CHIRALITY-DRIVEN MODE OF BINDING OF ALPHA-AMINOPHOSPHONIC JRNL TITL 2 ACID-BASED ALLOSTERIC INHIBITORS OF THE HUMAN FARNESYL JRNL TITL 3 PYROPHOSPHATE SYNTHASE (HFPPS). JRNL REF J.MED.CHEM. V. 62 9691 2019 JRNL REFN ISSN 0022-2623 JRNL PMID 31577901 JRNL DOI 10.1021/ACS.JMEDCHEM.9B01104 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0238 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 78.72 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 21448 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) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.260 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.400 REMARK 3 FREE R VALUE TEST SET COUNT : 1215 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1529 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.36 REMARK 3 BIN R VALUE (WORKING SET) : 0.3970 REMARK 3 BIN FREE R VALUE SET COUNT : 90 REMARK 3 BIN FREE R VALUE : 0.3710 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2716 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 71 REMARK 3 SOLVENT ATOMS : 88 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 48.07 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 71.49 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -6.19000 REMARK 3 B22 (A**2) : -6.19000 REMARK 3 B33 (A**2) : 12.38000 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): 0.252 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.215 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.336 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 32.926 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2859 ; 0.012 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 2576 ; 0.005 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3889 ; 1.667 ; 1.672 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5954 ; 1.374 ; 1.588 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 343 ; 6.692 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 146 ;36.736 ;23.699 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 459 ;17.720 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;16.418 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 362 ; 0.071 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3195 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 603 ; 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): 1375 ; 2.192 ; 4.917 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1374 ; 2.190 ; 4.915 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1717 ; 3.321 ; 7.369 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1718 ; 3.322 ; 7.372 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1483 ; 2.643 ; 5.525 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1480 ; 2.589 ; 5.511 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2167 ; 4.101 ; 8.161 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3315 ; 7.106 ;59.836 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3304 ; 6.968 ;59.682 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 6 F 76 REMARK 3 ORIGIN FOR THE GROUP (A): 3.2462 27.1407 7.7972 REMARK 3 T TENSOR REMARK 3 T11: 0.1484 T22: 0.3973 REMARK 3 T33: 0.4792 T12: 0.1643 REMARK 3 T13: 0.1776 T23: 0.1221 REMARK 3 L TENSOR REMARK 3 L11: 7.4353 L22: 1.2346 REMARK 3 L33: 3.5152 L12: 1.0812 REMARK 3 L13: 3.8862 L23: 1.3940 REMARK 3 S TENSOR REMARK 3 S11: -0.0173 S12: -1.0771 S13: 0.3241 REMARK 3 S21: 0.2850 S22: -0.0252 S23: 0.4528 REMARK 3 S31: 0.0008 S32: -0.8334 S33: 0.0424 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 77 F 147 REMARK 3 ORIGIN FOR THE GROUP (A): 12.3117 26.9424 3.9633 REMARK 3 T TENSOR REMARK 3 T11: 0.0845 T22: 0.0599 REMARK 3 T33: 0.1432 T12: 0.0664 REMARK 3 T13: 0.0335 T23: 0.0155 REMARK 3 L TENSOR REMARK 3 L11: 7.3612 L22: 2.2263 REMARK 3 L33: 2.8657 L12: 2.5716 REMARK 3 L13: 0.1333 L23: 0.2045 REMARK 3 S TENSOR REMARK 3 S11: 0.0027 S12: -0.2185 S13: -0.0593 REMARK 3 S21: 0.2000 S22: 0.0655 S23: 0.2470 REMARK 3 S31: -0.3535 S32: -0.2839 S33: -0.0682 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 148 F 217 REMARK 3 ORIGIN FOR THE GROUP (A): 12.0589 22.9222 -11.4108 REMARK 3 T TENSOR REMARK 3 T11: 0.0313 T22: 0.1430 REMARK 3 T33: 0.2460 T12: 0.0437 REMARK 3 T13: -0.0663 T23: -0.0546 REMARK 3 L TENSOR REMARK 3 L11: 5.0655 L22: 3.8975 REMARK 3 L33: 3.4263 L12: 1.8558 REMARK 3 L13: -2.0980 L23: -1.5230 REMARK 3 S TENSOR REMARK 3 S11: 0.0942 S12: 0.3133 S13: -0.2647 REMARK 3 S21: -0.1346 S22: -0.1058 S23: 0.0319 REMARK 3 S31: -0.0664 S32: 0.0021 S33: 0.0116 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 218 F 351 REMARK 3 ORIGIN FOR THE GROUP (A): 9.6889 37.4188 -18.2950 REMARK 3 T TENSOR REMARK 3 T11: 0.1550 T22: 0.2802 REMARK 3 T33: 0.2893 T12: 0.0565 REMARK 3 T13: -0.0293 T23: -0.0326 REMARK 3 L TENSOR REMARK 3 L11: 4.6992 L22: 1.8786 REMARK 3 L33: 1.3755 L12: 1.0381 REMARK 3 L13: -1.0833 L23: -0.3789 REMARK 3 S TENSOR REMARK 3 S11: 0.1716 S12: 0.2806 S13: 0.4107 REMARK 3 S21: -0.1835 S22: -0.0394 S23: 0.0638 REMARK 3 S31: -0.2806 S32: 0.0660 S33: -0.1321 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 6OAH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-MAR-19. REMARK 100 THE DEPOSITION ID IS D_1000240306. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-FEB-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 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 : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22715 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 78.720 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 12.90 REMARK 200 R MERGE (I) : 0.06600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.24 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.6 REMARK 200 DATA REDUNDANCY IN SHELL : 12.80 REMARK 200 R MERGE FOR SHELL (I) : 1.65000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: REFMAC 5.8.0238 REMARK 200 STARTING MODEL: 4H5C REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.07 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.075 M HEPES, 0.6 M POTASSIUM REMARK 280 PHOSPHATE, 0.6 M SODIUM PHOSPHATE, 25% GLYCEROL, PH 7.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, 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 35.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 55.66500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 55.66500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 17.50000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 55.66500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 55.66500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 52.50000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 55.66500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.66500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 17.50000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 55.66500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.66500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 52.50000 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 35.00000 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: 5300 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27290 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -39.0 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 ASP F 31 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 SER F 7 OG REMARK 470 ASP F 8 CG OD1 OD2 REMARK 470 GLN F 15 CG CD OE1 NE2 REMARK 470 MET F 33 CG SD CE REMARK 470 LYS F 57 NZ REMARK 470 ARG F 75 CD NE CZ NH1 NH2 REMARK 470 LYS F 76 CE NZ REMARK 470 LYS F 121 CE NZ REMARK 470 GLN F 180 CD OE1 NE2 REMARK 470 LYS F 191 CG CD CE NZ REMARK 470 LYS F 223 CE NZ REMARK 470 LYS F 257 NZ REMARK 470 GLU F 288 CG CD OE1 OE2 REMARK 470 LYS F 293 CG CD CE NZ REMARK 470 ARG F 300 CD NE CZ NH1 NH2 REMARK 470 LEU F 315 CG CD1 CD2 REMARK 470 ARG F 346 NE CZ NH1 NH2 REMARK 470 LYS F 347 NZ 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 ALA F 11 C ALA F 11 O 0.134 REMARK 500 TYR F 58 C TYR F 58 O 0.116 REMARK 500 GLU F 93 CD GLU F 93 OE1 0.071 REMARK 500 ASP F 104 CB ASP F 104 CG 0.163 REMARK 500 GLU F 168 CD GLU F 168 OE1 -0.073 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 GLU F 37 -37.29 -35.26 REMARK 500 VAL F 124 -75.35 -122.05 REMARK 500 ALA F 178 56.09 -118.74 REMARK 500 THR F 201 -49.23 -132.19 REMARK 500 VAL F 254 -69.16 -97.45 REMARK 500 ASN F 265 37.56 77.26 REMARK 500 CYS F 267 76.19 -65.31 REMARK 500 ASP F 309 53.08 38.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 LEU F 110 10.99 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 GOL F 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue M2V F 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue M2V F 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 F 404 DBREF 6OAH F 1 353 UNP P14324 FPPS_HUMAN 67 419 SEQADV 6OAH MET F -21 UNP P14324 INITIATING METHIONINE SEQADV 6OAH GLY F -20 UNP P14324 EXPRESSION TAG SEQADV 6OAH SER F -19 UNP P14324 EXPRESSION TAG SEQADV 6OAH SER F -18 UNP P14324 EXPRESSION TAG SEQADV 6OAH HIS F -17 UNP P14324 EXPRESSION TAG SEQADV 6OAH HIS F -16 UNP P14324 EXPRESSION TAG SEQADV 6OAH HIS F -15 UNP P14324 EXPRESSION TAG SEQADV 6OAH HIS F -14 UNP P14324 EXPRESSION TAG SEQADV 6OAH HIS F -13 UNP P14324 EXPRESSION TAG SEQADV 6OAH HIS F -12 UNP P14324 EXPRESSION TAG SEQADV 6OAH SER F -11 UNP P14324 EXPRESSION TAG SEQADV 6OAH SER F -10 UNP P14324 EXPRESSION TAG SEQADV 6OAH GLY F -9 UNP P14324 EXPRESSION TAG SEQADV 6OAH ARG F -8 UNP P14324 EXPRESSION TAG SEQADV 6OAH GLU F -7 UNP P14324 EXPRESSION TAG SEQADV 6OAH ASN F -6 UNP P14324 EXPRESSION TAG SEQADV 6OAH LEU F -5 UNP P14324 EXPRESSION TAG SEQADV 6OAH TYR F -4 UNP P14324 EXPRESSION TAG SEQADV 6OAH PHE F -3 UNP P14324 EXPRESSION TAG SEQADV 6OAH GLN F -2 UNP P14324 EXPRESSION TAG SEQADV 6OAH GLY F -1 UNP P14324 EXPRESSION TAG SEQADV 6OAH 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 GOL F 401 6 HET M2V F 402 30 HET M2V F 403 30 HET PO4 F 404 5 HETNAM GOL GLYCEROL HETNAM M2V [(1R)-1-{[6-(3-CHLORO-4-METHYLPHENYL)THIENO[2,3- HETNAM 2 M2V D]PYRIMIDIN-4-YL]AMINO}-2-PHENYLETHYL]PHOSPHONIC ACID HETNAM PO4 PHOSPHATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 GOL C3 H8 O3 FORMUL 3 M2V 2(C21 H19 CL N3 O3 P S) FORMUL 5 PO4 O4 P 3- FORMUL 6 HOH *88(H2 O) HELIX 1 AA1 ASP F 8 THR F 29 1 22 HELIX 2 AA2 HIS F 35 GLU F 37 5 3 HELIX 3 AA3 ILE F 38 ALA F 53 1 16 HELIX 4 AA4 TYR F 58 VAL F 72 1 15 HELIX 5 AA5 GLU F 73 GLN F 77 5 5 HELIX 6 AA6 ASP F 78 ASP F 107 1 30 HELIX 7 AA7 TRP F 118 LYS F 121 5 4 HELIX 8 AA8 VAL F 124 LEU F 126 5 3 HELIX 9 AA9 ASP F 127 ARG F 148 1 22 HELIX 10 AB1 TYR F 152 ALA F 178 1 27 HELIX 11 AB2 ASP F 184 PHE F 188 5 5 HELIX 12 AB3 THR F 189 THR F 201 1 13 HELIX 13 AB4 THR F 201 PHE F 206 1 6 HELIX 14 AB5 PHE F 206 ALA F 217 1 12 HELIX 15 AB6 GLY F 221 GLY F 250 1 30 HELIX 16 AB7 THR F 260 ASN F 265 1 6 HELIX 17 AB8 SER F 268 ALA F 278 1 11 HELIX 18 AB9 THR F 279 TYR F 290 1 12 HELIX 19 AC1 GLU F 294 LEU F 308 1 15 HELIX 20 AC2 ASP F 309 ALA F 333 1 25 HELIX 21 AC3 PRO F 337 TYR F 349 1 13 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 8.68 SITE 1 AC1 7 TYR F 140 ARG F 141 LYS F 144 GLU F 158 SITE 2 AC1 7 GLN F 162 HOH F 501 HOH F 505 SITE 1 AC2 11 ASN F 59 ARG F 60 SER F 205 PHE F 206 SITE 2 AC2 11 PHE F 239 GLN F 242 LEU F 344 LYS F 347 SITE 3 AC2 11 ILE F 348 HOH F 504 HOH F 525 SITE 1 AC3 5 ASP F 251 SER F 253 ALA F 312 GLU F 319 SITE 2 AC3 5 LYS F 350 SITE 1 AC4 9 GLY F 56 LYS F 57 ARG F 60 GLN F 96 SITE 2 AC4 9 ARG F 113 HOH F 507 HOH F 508 HOH F 537 SITE 3 AC4 9 HOH F 554 CRYST1 111.330 111.330 70.000 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 0.008982 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008982 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014286 0.00000