HEADER TRANSFERASE 28-NOV-18 6N83 TITLE CRYSTAL STRUCTURE OF HUMAN FPPS IN COMPLEX WITH AN ALLOSTERIC TITLE 2 INHIBITOR YF-02037 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,M.A.SCHILLING,A.M.BERGHUIS REVDAT 3 11-OCT-23 6N83 1 REMARK REVDAT 2 27-NOV-19 6N83 1 JRNL REVDAT 1 06-NOV-19 6N83 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. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0230 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 78.67 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 31095 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.217 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1696 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2267 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.71 REMARK 3 BIN R VALUE (WORKING SET) : 0.3770 REMARK 3 BIN FREE R VALUE SET COUNT : 108 REMARK 3 BIN FREE R VALUE : 0.4360 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2694 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 38 REMARK 3 SOLVENT ATOMS : 103 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 48.82 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 75.05 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.86000 REMARK 3 B22 (A**2) : -4.86000 REMARK 3 B33 (A**2) : 9.71000 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): 0.145 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.135 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.172 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 14.772 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.971 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.962 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2821 ; 0.014 ; 0.014 REMARK 3 BOND LENGTHS OTHERS (A): 2518 ; 0.003 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3836 ; 1.669 ; 1.669 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5863 ; 1.052 ; 1.642 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 344 ; 6.693 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 143 ;32.649 ;23.217 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 462 ;16.604 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;22.759 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 360 ; 0.084 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3172 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 549 ; 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): 1376 ; 2.599 ; 4.486 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1375 ; 2.597 ; 4.484 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1720 ; 3.870 ; 6.711 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1721 ; 3.869 ; 6.714 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1444 ; 3.562 ; 4.841 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1441 ; 3.415 ; 4.827 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2111 ; 4.999 ; 7.133 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3360 ; 8.801 ;53.846 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3336 ; 8.656 ;53.483 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 9 F 71 REMARK 3 ORIGIN FOR THE GROUP (A): 5.5631 82.1481 11.5510 REMARK 3 T TENSOR REMARK 3 T11: 0.2635 T22: 0.3783 REMARK 3 T33: 0.4169 T12: -0.2228 REMARK 3 T13: -0.2322 T23: 0.0731 REMARK 3 L TENSOR REMARK 3 L11: 6.5950 L22: 1.9873 REMARK 3 L33: 5.2752 L12: -0.9168 REMARK 3 L13: -4.5054 L23: 0.9823 REMARK 3 S TENSOR REMARK 3 S11: -0.1543 S12: 1.0979 S13: -0.3977 REMARK 3 S21: -0.5765 S22: 0.2109 S23: 0.7094 REMARK 3 S31: 0.2970 S32: -1.0377 S33: -0.0566 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 72 F 178 REMARK 3 ORIGIN FOR THE GROUP (A): 11.6792 86.4729 18.8184 REMARK 3 T TENSOR REMARK 3 T11: 0.0499 T22: 0.0633 REMARK 3 T33: 0.0804 T12: -0.0478 REMARK 3 T13: -0.0138 T23: 0.0039 REMARK 3 L TENSOR REMARK 3 L11: 4.7534 L22: 2.7483 REMARK 3 L33: 2.2805 L12: 0.0009 REMARK 3 L13: -1.3129 L23: -0.4192 REMARK 3 S TENSOR REMARK 3 S11: -0.0663 S12: 0.1553 S13: -0.1692 REMARK 3 S21: -0.1467 S22: 0.0931 S23: 0.4470 REMARK 3 S31: 0.1218 S32: -0.2962 S33: -0.0268 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 179 F 273 REMARK 3 ORIGIN FOR THE GROUP (A): 11.0531 79.5318 35.4472 REMARK 3 T TENSOR REMARK 3 T11: 0.1161 T22: 0.2720 REMARK 3 T33: 0.1140 T12: -0.0123 REMARK 3 T13: 0.0457 T23: 0.0086 REMARK 3 L TENSOR REMARK 3 L11: 6.5352 L22: 4.7554 REMARK 3 L33: 4.8553 L12: -1.4155 REMARK 3 L13: 1.3752 L23: -3.1914 REMARK 3 S TENSOR REMARK 3 S11: 0.1299 S12: -0.3931 S13: -0.5964 REMARK 3 S21: 0.1380 S22: -0.1980 S23: 0.0503 REMARK 3 S31: 0.3784 S32: 0.4658 S33: 0.0680 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 274 F 350 REMARK 3 ORIGIN FOR THE GROUP (A): 9.5283 71.9955 42.1690 REMARK 3 T TENSOR REMARK 3 T11: 0.3443 T22: 0.4129 REMARK 3 T33: 0.4340 T12: 0.0564 REMARK 3 T13: 0.0775 T23: 0.1599 REMARK 3 L TENSOR REMARK 3 L11: 6.3980 L22: 3.7763 REMARK 3 L33: 3.0604 L12: -2.7397 REMARK 3 L13: 1.8031 L23: -2.3571 REMARK 3 S TENSOR REMARK 3 S11: 0.1126 S12: -0.5251 S13: -0.6729 REMARK 3 S21: 0.2969 S22: -0.2120 S23: -0.0004 REMARK 3 S31: 0.4828 S32: 0.4333 S33: 0.0994 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 6N83 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-NOV-18. REMARK 100 THE DEPOSITION ID IS D_1000237117. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-JUN-18 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 : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32849 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 111.080 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 13.00 REMARK 200 R MERGE (I) : 0.04300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 25.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 13.10 REMARK 200 R MERGE FOR SHELL (I) : 1.37500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: 4XQR REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.08 M TRISHCL PH 8.5, 1.6 M AMMONIUM REMARK 280 PHOSPHATE, 20% (V/V) GLYCEROL, VAPOR DIFFUSION, SITTING 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 38.36500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 55.54000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 55.54000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 19.18250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 55.54000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 55.54000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 57.54750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 55.54000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.54000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 19.18250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 55.54000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.54000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 57.54750 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 38.36500 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: 4930 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28620 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -74.0 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 111.08000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 111.08000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 38.36500 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 GLU F 32 REMARK 465 MET F 33 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 VAL F 9 CG1 CG2 REMARK 470 GLN F 12 CG CD OE1 NE2 REMARK 470 GLU F 13 CD OE1 OE2 REMARK 470 GLN F 15 CG CD OE1 NE2 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 VAL F 183 CG1 CG2 REMARK 470 LYS F 191 CG CD CE NZ REMARK 470 LYS F 223 CE NZ REMARK 470 GLU F 288 CD OE1 OE2 REMARK 470 GLN F 292 CG CD OE1 NE2 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 CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O4 PO4 F 402 O HOH F 501 1.91 REMARK 500 O HOH F 504 O HOH F 529 2.09 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 ASP F 107 CB - CA - C ANGL. DEV. = -14.5 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 HIS F 35 78.16 -115.48 REMARK 500 ARG F 75 31.07 -90.59 REMARK 500 GLN F 77 72.70 -108.28 REMARK 500 VAL F 124 -66.85 -104.75 REMARK 500 PRO F 179 107.36 -56.21 REMARK 500 GLN F 180 119.81 -36.17 REMARK 500 THR F 201 -55.61 -124.55 REMARK 500 ASP F 251 120.85 -38.63 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG F 113 0.13 SIDE CHAIN REMARK 500 ARG F 141 0.08 SIDE CHAIN REMARK 500 ARG F 148 0.12 SIDE CHAIN REMARK 500 ARG F 187 0.08 SIDE CHAIN 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 YL6 F 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 F 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL F 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL F 404 DBREF 6N83 F 1 353 UNP P14324 FPPS_HUMAN 67 419 SEQADV 6N83 MET F -21 UNP P14324 INITIATING METHIONINE SEQADV 6N83 GLY F -20 UNP P14324 EXPRESSION TAG SEQADV 6N83 SER F -19 UNP P14324 EXPRESSION TAG SEQADV 6N83 SER F -18 UNP P14324 EXPRESSION TAG SEQADV 6N83 HIS F -17 UNP P14324 EXPRESSION TAG SEQADV 6N83 HIS F -16 UNP P14324 EXPRESSION TAG SEQADV 6N83 HIS F -15 UNP P14324 EXPRESSION TAG SEQADV 6N83 HIS F -14 UNP P14324 EXPRESSION TAG SEQADV 6N83 HIS F -13 UNP P14324 EXPRESSION TAG SEQADV 6N83 HIS F -12 UNP P14324 EXPRESSION TAG SEQADV 6N83 SER F -11 UNP P14324 EXPRESSION TAG SEQADV 6N83 SER F -10 UNP P14324 EXPRESSION TAG SEQADV 6N83 GLY F -9 UNP P14324 EXPRESSION TAG SEQADV 6N83 ARG F -8 UNP P14324 EXPRESSION TAG SEQADV 6N83 GLU F -7 UNP P14324 EXPRESSION TAG SEQADV 6N83 ASN F -6 UNP P14324 EXPRESSION TAG SEQADV 6N83 LEU F -5 UNP P14324 EXPRESSION TAG SEQADV 6N83 TYR F -4 UNP P14324 EXPRESSION TAG SEQADV 6N83 PHE F -3 UNP P14324 EXPRESSION TAG SEQADV 6N83 GLN F -2 UNP P14324 EXPRESSION TAG SEQADV 6N83 GLY F -1 UNP P14324 EXPRESSION TAG SEQADV 6N83 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 YL6 F 401 31 HET PO4 F 402 5 HET CL F 403 1 HET CL F 404 1 HETNAM YL6 [(1R)-1-{[6-(3-CHLORO-4-METHYLPHENYL)THIENO[2,3- HETNAM 2 YL6 D]PYRIMIDIN-4-YL]AMINO}-2-(3-FLUOROPHENYL) HETNAM 3 YL6 ETHYL]PHOSPHONIC ACID HETNAM PO4 PHOSPHATE ION HETNAM CL CHLORIDE ION FORMUL 2 YL6 C21 H18 CL F N3 O3 P S FORMUL 3 PO4 O4 P 3- FORMUL 4 CL 2(CL 1-) FORMUL 6 HOH *103(H2 O) HELIX 1 AA1 GLN F 12 HIS F 20 1 9 HELIX 2 AA2 HIS F 20 THR F 29 1 10 HELIX 3 AA3 HIS F 35 GLU F 37 5 3 HELIX 4 AA4 ILE F 38 ALA F 53 1 16 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 ASP F 184 PHE F 188 5 5 HELIX 13 AB4 THR F 189 THR F 201 1 13 HELIX 14 AB5 THR F 201 ALA F 217 1 17 HELIX 15 AB6 GLY F 221 GLY F 250 1 30 HELIX 16 AB7 ASP F 251 GLY F 256 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 338 TYR F 349 1 12 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 11.53 SITE 1 AC1 14 LYS F 57 ASN F 59 ARG F 60 SER F 205 SITE 2 AC1 14 PHE F 206 PHE F 239 GLN F 242 ASP F 243 SITE 3 AC1 14 ILE F 348 LYS F 350 PO4 F 402 HOH F 520 SITE 4 AC1 14 HOH F 523 HOH F 542 SITE 1 AC2 7 LYS F 57 TYR F 58 ASN F 59 ARG F 60 SITE 2 AC2 7 YL6 F 401 HOH F 501 HOH F 504 SITE 1 AC3 2 PHE F 203 LYS F 229 SITE 1 AC4 1 ASP F 80 CRYST1 111.080 111.080 76.730 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 0.009003 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009003 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013033 0.00000