PDB Short entry for 5JV2 HEADER TRANSFERASE/TRANSFERASE INHIBITOR 10-MAY-16 5JV2 TITLE CRYSTAL STRUCTURE OF HUMAN FPPS IN COMPLEX WITH AN ALLOSTERIC TITLE 2 INHIBITOR MIT-01-055 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,M.TSAKOS,Y.S.TSANTRIZOS,A.M.BERGHUIS REVDAT 3 27-SEP-23 5JV2 1 REMARK REVDAT 2 22-MAR-17 5JV2 1 JRNL REVDAT 1 15-MAR-17 5JV2 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. 2.30 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 55.21 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 20190 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1106 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1470 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.84 REMARK 3 BIN R VALUE (WORKING SET) : 0.2840 REMARK 3 BIN FREE R VALUE SET COUNT : 70 REMARK 3 BIN FREE R VALUE : 0.3860 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2602 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 49 REMARK 3 SOLVENT ATOMS : 137 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 37.92 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 59.84 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.17000 REMARK 3 B22 (A**2) : -3.17000 REMARK 3 B33 (A**2) : 6.34000 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): 0.243 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.207 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.169 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 14.225 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.957 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.938 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2707 ; 0.024 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 2510 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3682 ; 2.157 ; 1.984 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5735 ; 1.179 ; 3.003 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 327 ; 6.133 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 124 ;37.446 ;24.597 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 428 ;16.267 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;18.709 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 408 ; 0.122 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3061 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 631 ; 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): 1320 ; 1.818 ; 3.107 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1319 ; 1.805 ; 3.105 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1643 ; 2.759 ; 4.645 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1644 ; 2.759 ; 4.647 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1386 ; 2.809 ; 3.549 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1387 ; 2.808 ; 3.552 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2040 ; 4.399 ; 5.248 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3399 ; 8.196 ;28.275 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3400 ; 8.195 ;28.289 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 : 6 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): 1.6035 80.0522 10.0118 REMARK 3 T TENSOR REMARK 3 T11: 0.2513 T22: 0.4416 REMARK 3 T33: 0.2070 T12: -0.1463 REMARK 3 T13: -0.1237 T23: -0.0853 REMARK 3 L TENSOR REMARK 3 L11: 12.6288 L22: 9.7429 REMARK 3 L33: 10.9164 L12: 4.9931 REMARK 3 L13: -7.3660 L23: -4.8785 REMARK 3 S TENSOR REMARK 3 S11: -0.2866 S12: 1.2030 S13: -0.2374 REMARK 3 S21: -0.6312 S22: 0.3380 S23: 0.8440 REMARK 3 S31: 0.6236 S32: -1.5396 S33: -0.0513 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 36 F 76 REMARK 3 ORIGIN FOR THE GROUP (A): 6.1420 82.4649 13.4467 REMARK 3 T TENSOR REMARK 3 T11: 0.1339 T22: 0.1498 REMARK 3 T33: 0.1881 T12: -0.0798 REMARK 3 T13: -0.1142 T23: 0.0177 REMARK 3 L TENSOR REMARK 3 L11: 7.3578 L22: 2.1950 REMARK 3 L33: 5.0486 L12: 0.2698 REMARK 3 L13: -4.7840 L23: 0.6473 REMARK 3 S TENSOR REMARK 3 S11: 0.0451 S12: 0.6395 S13: -0.1992 REMARK 3 S21: -0.3539 S22: 0.0213 S23: 0.4448 REMARK 3 S31: 0.0853 S32: -0.6639 S33: -0.0663 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 77 F 147 REMARK 3 ORIGIN FOR THE GROUP (A): 13.0487 82.5056 15.6824 REMARK 3 T TENSOR REMARK 3 T11: 0.0682 T22: 0.0560 REMARK 3 T33: 0.0301 T12: -0.0524 REMARK 3 T13: 0.0011 T23: -0.0157 REMARK 3 L TENSOR REMARK 3 L11: 6.5520 L22: 4.1076 REMARK 3 L33: 1.8872 L12: -2.3088 REMARK 3 L13: -0.5164 L23: -0.5048 REMARK 3 S TENSOR REMARK 3 S11: -0.1241 S12: 0.2275 S13: -0.3879 REMARK 3 S21: -0.2735 S22: 0.0711 S23: 0.2704 REMARK 3 S31: 0.2222 S32: -0.2898 S33: 0.0530 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 148 F 178 REMARK 3 ORIGIN FOR THE GROUP (A): 11.9684 92.2034 25.3621 REMARK 3 T TENSOR REMARK 3 T11: 0.0396 T22: 0.0345 REMARK 3 T33: 0.0354 T12: -0.0270 REMARK 3 T13: 0.0253 T23: -0.0125 REMARK 3 L TENSOR REMARK 3 L11: 10.6167 L22: 6.5958 REMARK 3 L33: 5.6526 L12: -5.0629 REMARK 3 L13: 4.3381 L23: -4.0596 REMARK 3 S TENSOR REMARK 3 S11: -0.0481 S12: -0.3564 S13: -0.0517 REMARK 3 S21: 0.1650 S22: 0.1457 S23: 0.3337 REMARK 3 S31: -0.2129 S32: -0.0482 S33: -0.0976 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 179 F 293 REMARK 3 ORIGIN FOR THE GROUP (A): 13.8129 77.4267 37.8437 REMARK 3 T TENSOR REMARK 3 T11: 0.2112 T22: 0.3526 REMARK 3 T33: 0.1980 T12: 0.0327 REMARK 3 T13: 0.0378 T23: 0.1309 REMARK 3 L TENSOR REMARK 3 L11: 6.2578 L22: 4.1633 REMARK 3 L33: 3.8724 L12: -1.1435 REMARK 3 L13: 1.0540 L23: -2.0555 REMARK 3 S TENSOR REMARK 3 S11: 0.0024 S12: -0.6149 S13: -0.7591 REMARK 3 S21: 0.4388 S22: -0.2058 S23: -0.2513 REMARK 3 S31: 0.3359 S32: 0.6334 S33: 0.2034 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 294 F 350 REMARK 3 ORIGIN FOR THE GROUP (A): 3.7419 73.3565 40.6957 REMARK 3 T TENSOR REMARK 3 T11: 0.3654 T22: 0.2985 REMARK 3 T33: 0.3260 T12: 0.0237 REMARK 3 T13: 0.1243 T23: 0.1590 REMARK 3 L TENSOR REMARK 3 L11: 6.0310 L22: 5.5760 REMARK 3 L33: 2.7109 L12: -3.0017 REMARK 3 L13: 1.8537 L23: -2.7744 REMARK 3 S TENSOR REMARK 3 S11: 0.0776 S12: -0.4180 S13: -0.8618 REMARK 3 S21: 0.3776 S22: -0.1770 S23: 0.2014 REMARK 3 S31: 0.4741 S32: 0.1972 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 5JV2 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_1000221266. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-MAR-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL 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) : 1.54178 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL 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 : 21337 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 55.210 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 17.00 REMARK 200 R MERGE (I) : 0.04800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 44.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.36 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.8 REMARK 200 DATA REDUNDANCY IN SHELL : 11.40 REMARK 200 R MERGE FOR SHELL (I) : 0.97200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.600 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 (%): 54.34 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.6 M AMMONIUM PHOSPHATE, 20% REMARK 280 GLYCEROL, 0.08 M TRISHCL, PH 8.5, 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 38.13500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 55.20500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 55.20500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 19.06750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 55.20500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 55.20500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 57.20250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 55.20500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.20500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 19.06750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 55.20500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.20500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 57.20250 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 38.13500 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: 4790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -73.0 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 110.41000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 110.41000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 38.13500 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 HIS F 35 REMARK 465 GLU F 73 REMARK 465 SER F 253 REMARK 465 VAL F 254 REMARK 465 THR F 255 REMARK 465 GLY F 256 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 GLU F 13 CG CD OE1 OE2 REMARK 470 LYS F 14 CE NZ REMARK 470 GLN F 15 CD OE1 NE2 REMARK 470 GLN F 19 CD OE1 NE2 REMARK 470 LYS F 57 CE NZ REMARK 470 ARG F 75 CG CD NE CZ NH1 NH2 REMARK 470 LYS F 76 CD CE NZ REMARK 470 LYS F 121 CE NZ REMARK 470 GLN F 180 CG CD OE1 NE2 REMARK 470 VAL F 183 CG1 CG2 REMARK 470 LYS F 191 CE NZ REMARK 470 LYS F 223 CE NZ REMARK 470 LYS F 257 CG CD CE NZ REMARK 470 ARG F 277 CD NE CZ NH1 NH2 REMARK 470 GLU F 281 CG CD OE1 OE2 REMARK 470 LYS F 287 CD CE NZ REMARK 470 GLU F 288 CG CD OE1 OE2 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: 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 OD1 ASN F 133 O HOH F 501 2.10 REMARK 500 O HOH F 511 O HOH F 613 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH F 611 O HOH F 630 8665 2.15 REMARK 500 REMARK 500 REMARK: NULL 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 PHE F 203 CG PHE F 203 CD2 0.102 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 174 CB - CG - OD1 ANGL. DEV. = 7.7 DEGREES REMARK 500 ASP F 174 CB - CG - OD2 ANGL. DEV. = -7.1 DEGREES REMARK 500 ARG F 346 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG F 346 NE - CZ - NH2 ANGL. DEV. = -3.6 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 64.93 -113.16 REMARK 500 VAL F 124 -66.25 -98.65 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 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 CL F 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6O3 F 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6O3 F 405 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5JV1 RELATED DB: PDB REMARK 900 RELATED ID: 5JV0 RELATED DB: PDB REMARK 900 RELATED ID: 5JUZ RELATED DB: PDB DBREF 5JV2 F 1 353 UNP P14324 FPPS_HUMAN 67 419 SEQADV 5JV2 MET F -21 UNP P14324 INITIATING METHIONINE SEQADV 5JV2 GLY F -20 UNP P14324 EXPRESSION TAG SEQADV 5JV2 SER F -19 UNP P14324 EXPRESSION TAG SEQADV 5JV2 SER F -18 UNP P14324 EXPRESSION TAG SEQADV 5JV2 HIS F -17 UNP P14324 EXPRESSION TAG SEQADV 5JV2 HIS F -16 UNP P14324 EXPRESSION TAG SEQADV 5JV2 HIS F -15 UNP P14324 EXPRESSION TAG SEQADV 5JV2 HIS F -14 UNP P14324 EXPRESSION TAG SEQADV 5JV2 HIS F -13 UNP P14324 EXPRESSION TAG SEQADV 5JV2 HIS F -12 UNP P14324 EXPRESSION TAG SEQADV 5JV2 SER F -11 UNP P14324 EXPRESSION TAG SEQADV 5JV2 SER F -10 UNP P14324 EXPRESSION TAG SEQADV 5JV2 GLY F -9 UNP P14324 EXPRESSION TAG SEQADV 5JV2 ARG F -8 UNP P14324 EXPRESSION TAG SEQADV 5JV2 GLU F -7 UNP P14324 EXPRESSION TAG SEQADV 5JV2 ASN F -6 UNP P14324 EXPRESSION TAG SEQADV 5JV2 LEU F -5 UNP P14324 EXPRESSION TAG SEQADV 5JV2 TYR F -4 UNP P14324 EXPRESSION TAG SEQADV 5JV2 PHE F -3 UNP P14324 EXPRESSION TAG SEQADV 5JV2 GLN F -2 UNP P14324 EXPRESSION TAG SEQADV 5JV2 GLY F -1 UNP P14324 EXPRESSION TAG SEQADV 5JV2 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 PO4 F 401 5 HET CL F 402 1 HET CL F 403 1 HET 6O3 F 404 21 HET 6O3 F 405 21 HETNAM PO4 PHOSPHATE ION HETNAM CL CHLORIDE ION HETNAM 6O3 {[6-(4-METHYLPHENYL)THIENO[2,3-D]PYRIMIDIN-5- HETNAM 2 6O3 YL]METHYL}PHOSPHONIC ACID FORMUL 2 PO4 O4 P 3- FORMUL 3 CL 2(CL 1-) FORMUL 5 6O3 2(C14 H13 N2 O3 P S) FORMUL 7 HOH *137(H2 O) HELIX 1 AA1 TYR F 10 THR F 29 1 20 HELIX 2 AA2 GLU F 30 GLU F 30 5 1 HELIX 3 AA3 PRO F 36 GLU F 37 5 2 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 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 THR F 189 THR F 201 1 13 HELIX 12 AB3 THR F 201 PHE F 206 1 6 HELIX 13 AB4 PHE F 206 ALA F 217 1 12 HELIX 14 AB5 GLY F 221 GLY F 250 1 30 HELIX 15 AB6 SER F 268 ALA F 278 1 11 HELIX 16 AB7 THR F 279 TYR F 290 1 12 HELIX 17 AB8 GLU F 294 LEU F 308 1 15 HELIX 18 AB9 ASP F 309 ALA F 333 1 25 HELIX 19 AC1 PRO F 338 LYS F 350 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 8.80 SITE 1 AC1 7 GLY F 56 LYS F 57 GLN F 96 ARG F 113 SITE 2 AC1 7 6O3 F 404 HOH F 521 HOH F 531 SITE 1 AC2 1 ASP F 80 SITE 1 AC3 3 GLN F 115 ILE F 116 ARG F 346 SITE 1 AC4 10 LYS F 57 ASN F 59 ARG F 60 THR F 63 SITE 2 AC4 10 SER F 205 PHE F 206 PHE F 239 LYS F 347 SITE 3 AC4 10 PO4 F 401 HOH F 508 SITE 1 AC5 8 THR F 111 GLY F 114 GLN F 115 ILE F 116 SITE 2 AC5 8 TYR F 322 ARG F 346 TYR F 349 HOH F 502 CRYST1 110.410 110.410 76.270 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 0.009057 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009057 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013111 0.00000