HEADER TRANSFERASE 24-JAN-07 2E92 TITLE S. CEREVISIAE GERANYLGERANYL PYROPHOSPHATE SYNTHASE IN COMPLEX WITH TITLE 2 MAGNESIUM AND BPH-261 COMPND MOL_ID: 1; COMPND 2 MOLECULE: GERANYLGERANYL PYROPHOSPHATE SYNTHETASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: GGPP SYNTHETASE, GGPPSASE, GERANYLGERANYL DIPHOSPHATE COMPND 5 SYNTHASE, BET2 SUPPRESSOR PROTEIN 1; COMPND 6 EC: 2.5.1.30; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET32/LIC KEYWDS PRENYLTRANSFERASE, FARNESYL PYROPHOSPHATE, BISPHOSPHONATE, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR R.T.GUO,T.P.KO,R.CAO,W.Y.JENG,C.K.-M.CHEN,T.H.CHANG,P.H.LIANG, AUTHOR 2 E.OLDFIELD,A.H.-J.WANG REVDAT 4 25-OCT-23 2E92 1 REMARK SEQADV LINK REVDAT 3 24-FEB-09 2E92 1 VERSN REVDAT 2 19-JUN-07 2E92 1 JRNL REVDAT 1 12-JUN-07 2E92 0 JRNL AUTH R.T.GUO,R.CAO,P.H.LIANG,T.P.KO,T.H.CHANG,M.P.HUDOCK, JRNL AUTH 2 W.Y.JENG,C.K.-M.CHEN,Y.ZHANG,Y.SONG,C.J.KUO,F.YIN, JRNL AUTH 3 E.OLDFIELD,A.H.-J.WANG JRNL TITL BISPHOSPHONATES TARGET MULTIPLE SITES IN BOTH CIS- AND JRNL TITL 2 TRANS-PRENYLTRANSFERASES JRNL REF PROC.NATL.ACAD.SCI.USA V. 104 10022 2007 JRNL REFN ISSN 0027-8424 JRNL PMID 17535895 JRNL DOI 10.1073/PNAS.0702254104 REMARK 2 REMARK 2 RESOLUTION. 2.31 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.31 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 91.4 REMARK 3 NUMBER OF REFLECTIONS : 28699 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 SET) : 0.199 REMARK 3 FREE R VALUE : 0.257 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1397 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.31 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.39 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2940 REMARK 3 BIN FREE R VALUE : 0.3680 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 135 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4741 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 44 REMARK 3 SOLVENT ATOMS : 326 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 49.47 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.26 REMARK 3 ESD FROM SIGMAA (A) : 0.30 REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.015 REMARK 3 BOND ANGLES (DEGREES) : 1.600 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ISOTROPIC REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2E92 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 26-JAN-07. REMARK 100 THE DEPOSITION ID IS D_1000026378. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL 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 : SPRING-8 REMARK 200 BEAMLINE : BL12B2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30293 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.310 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 200 DATA REDUNDANCY : 5.080 REMARK 200 R MERGE (I) : 0.07300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 21.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.31 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.39 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.1 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.45100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 2DH4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.32 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.08M CH3COONA, 16% PEG 4000, 6-10% REMARK 280 GLYCEROL, 6-10% 1,2-PROPANEDIOL, PH 7.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 298.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 23.43550 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 63.86650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 58.02550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 63.86650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.43550 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 58.02550 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: 8220 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25150 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -88.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 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 A 1 REMARK 465 THR A 2 REMARK 465 LYS A 3 REMARK 465 LYS A 38 REMARK 465 PRO A 39 REMARK 465 GLY A 40 REMARK 465 LYS A 41 REMARK 465 SER A 192 REMARK 465 SER A 193 REMARK 465 HIS A 194 REMARK 465 HIS A 195 REMARK 465 GLY A 196 REMARK 465 HIS A 197 REMARK 465 SER A 226 REMARK 465 GLU A 227 REMARK 465 LYS A 228 REMARK 465 ASN A 308 REMARK 465 GLU A 309 REMARK 465 ASN A 310 REMARK 465 LYS A 311 REMARK 465 TYR A 312 REMARK 465 LEU A 313 REMARK 465 PRO A 314 REMARK 465 ASP A 315 REMARK 465 LEU A 316 REMARK 465 ALA A 317 REMARK 465 SER A 318 REMARK 465 HIS A 319 REMARK 465 SER A 320 REMARK 465 ASP A 321 REMARK 465 THR A 322 REMARK 465 ALA A 323 REMARK 465 THR A 324 REMARK 465 ASN A 325 REMARK 465 LEU A 326 REMARK 465 HIS A 327 REMARK 465 ASP A 328 REMARK 465 GLU A 329 REMARK 465 LEU A 330 REMARK 465 LEU A 331 REMARK 465 TYR A 332 REMARK 465 ILE A 333 REMARK 465 ILE A 334 REMARK 465 ASP A 335 REMARK 465 HIS A 336 REMARK 465 LEU A 337 REMARK 465 SER A 338 REMARK 465 GLU A 339 REMARK 465 LEU A 340 REMARK 465 MET B 1 REMARK 465 THR B 2 REMARK 465 LYS B 3 REMARK 465 PRO B 39 REMARK 465 GLY B 40 REMARK 465 LYS B 41 REMARK 465 SER B 192 REMARK 465 SER B 193 REMARK 465 HIS B 194 REMARK 465 HIS B 195 REMARK 465 GLY B 196 REMARK 465 HIS B 197 REMARK 465 SER B 225 REMARK 465 SER B 226 REMARK 465 GLU B 227 REMARK 465 LYS B 228 REMARK 465 ASP B 307 REMARK 465 ASN B 308 REMARK 465 GLU B 309 REMARK 465 ASN B 310 REMARK 465 LYS B 311 REMARK 465 TYR B 312 REMARK 465 LEU B 313 REMARK 465 PRO B 314 REMARK 465 ASP B 315 REMARK 465 LEU B 316 REMARK 465 ALA B 317 REMARK 465 SER B 318 REMARK 465 HIS B 319 REMARK 465 SER B 320 REMARK 465 ASP B 321 REMARK 465 THR B 322 REMARK 465 ALA B 323 REMARK 465 THR B 324 REMARK 465 ASN B 325 REMARK 465 LEU B 326 REMARK 465 HIS B 327 REMARK 465 ASP B 328 REMARK 465 GLU B 329 REMARK 465 LEU B 330 REMARK 465 LEU B 331 REMARK 465 TYR B 332 REMARK 465 ILE B 333 REMARK 465 ILE B 334 REMARK 465 ASP B 335 REMARK 465 HIS B 336 REMARK 465 LEU B 337 REMARK 465 SER B 338 REMARK 465 GLU B 339 REMARK 465 LEU B 340 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 O2 M0N A 901 O HOH A 723 2.12 REMARK 500 O6 M0N A 901 O HOH A 723 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 269 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 269 NE - CZ - NH2 ANGL. DEV. = -3.0 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 ARG A 53 1.77 -68.72 REMARK 500 SER A 120 13.06 -69.51 REMARK 500 PRO A 158 31.67 -91.38 REMARK 500 ILE A 304 -60.58 -102.61 REMARK 500 LYS A 305 -15.05 -49.55 REMARK 500 LEU B 37 1.91 -69.82 REMARK 500 ARG B 53 4.67 -67.98 REMARK 500 LYS B 59 -37.16 -31.73 REMARK 500 PRO B 158 35.32 -95.55 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 A1301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 80 OD1 REMARK 620 2 ASP A 84 OD2 88.3 REMARK 620 3 M0N A 901 O5 93.8 78.8 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 80 OD2 REMARK 620 2 ASP A 84 OD2 81.8 REMARK 620 3 M0N A 901 O1 81.8 148.9 REMARK 620 4 M0N A 901 O5 78.1 73.1 77.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1303 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 80 OD1 REMARK 620 2 ASP B 84 OD2 76.0 REMARK 620 3 HOH B 708 O 71.3 80.1 REMARK 620 4 M0N B 902 O1 92.9 165.1 86.9 REMARK 620 5 M0N B 902 O5 90.3 88.0 160.0 102.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1304 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 80 OD2 REMARK 620 2 ASP B 84 OD2 92.2 REMARK 620 3 ASP B 84 OD1 110.2 46.0 REMARK 620 4 HOH B 707 O 87.5 160.1 151.1 REMARK 620 5 M0N B 902 O5 81.0 85.2 128.9 75.0 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE M0N A 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE M0N B 902 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2DH4 RELATED DB: PDB REMARK 900 NATIVE PROTEIN WITHOUT LIGAND REMARK 900 RELATED ID: 2E8T RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH MAGNESIUM, FSPP AND IPP REMARK 900 RELATED ID: 2E8U RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH MAGNESIUM AND IPP (IN SPACE GROUP, REMARK 900 P21) REMARK 900 RELATED ID: 2E8V RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH PRODUCT GGPP (IN SPACE GROUP, P21) REMARK 900 RELATED ID: 2E8W RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH MAGNESIUM AND IPP REMARK 900 RELATED ID: 2E8X RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH MAGNESIUM AND GPP REMARK 900 RELATED ID: 2E90 RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH MAGNESIUM, PYROPHOSPHATE AND FPP REMARK 900 RELATED ID: 2E91 RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH MAGNESIUM AND BPH-91 REMARK 900 RELATED ID: 2E93 RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH BPH-629 REMARK 900 RELATED ID: 2E94 RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH MAGNESIUM AND BPH-364 REMARK 900 RELATED ID: 2E95 RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH MAGNESIUM AND BPH-675 REMARK 900 RELATED ID: 2E96 RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH BPH-715 REMARK 900 RELATED ID: 2E97 RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH MAGNESIUM, IPP AND BPH-715 DBREF 2E92 A 6 340 UNP Q12051 GGPPS_YEAST 1 335 DBREF 2E92 B 6 340 UNP Q12051 GGPPS_YEAST 1 335 SEQADV 2E92 MET A 1 UNP Q12051 CLONING ARTIFACT SEQADV 2E92 THR A 2 UNP Q12051 CLONING ARTIFACT SEQADV 2E92 LYS A 3 UNP Q12051 CLONING ARTIFACT SEQADV 2E92 ASN A 4 UNP Q12051 CLONING ARTIFACT SEQADV 2E92 LYS A 5 UNP Q12051 CLONING ARTIFACT SEQADV 2E92 MET B 1 UNP Q12051 CLONING ARTIFACT SEQADV 2E92 THR B 2 UNP Q12051 CLONING ARTIFACT SEQADV 2E92 LYS B 3 UNP Q12051 CLONING ARTIFACT SEQADV 2E92 ASN B 4 UNP Q12051 CLONING ARTIFACT SEQADV 2E92 LYS B 5 UNP Q12051 CLONING ARTIFACT SEQRES 1 A 340 MET THR LYS ASN LYS MET GLU ALA LYS ILE ASP GLU LEU SEQRES 2 A 340 ILE ASN ASN ASP PRO VAL TRP SER SER GLN ASN GLU SER SEQRES 3 A 340 LEU ILE SER LYS PRO TYR ASN HIS ILE LEU LEU LYS PRO SEQRES 4 A 340 GLY LYS ASN PHE ARG LEU ASN LEU ILE VAL GLN ILE ASN SEQRES 5 A 340 ARG VAL MET ASN LEU PRO LYS ASP GLN LEU ALA ILE VAL SEQRES 6 A 340 SER GLN ILE VAL GLU LEU LEU HIS ASN SER SER LEU LEU SEQRES 7 A 340 ILE ASP ASP ILE GLU ASP ASN ALA PRO LEU ARG ARG GLY SEQRES 8 A 340 GLN THR THR SER HIS LEU ILE PHE GLY VAL PRO SER THR SEQRES 9 A 340 ILE ASN THR ALA ASN TYR MET TYR PHE ARG ALA MET GLN SEQRES 10 A 340 LEU VAL SER GLN LEU THR THR LYS GLU PRO LEU TYR HIS SEQRES 11 A 340 ASN LEU ILE THR ILE PHE ASN GLU GLU LEU ILE ASN LEU SEQRES 12 A 340 HIS ARG GLY GLN GLY LEU ASP ILE TYR TRP ARG ASP PHE SEQRES 13 A 340 LEU PRO GLU ILE ILE PRO THR GLN GLU MET TYR LEU ASN SEQRES 14 A 340 MET VAL MET ASN LYS THR GLY GLY LEU PHE ARG LEU THR SEQRES 15 A 340 LEU ARG LEU MET GLU ALA LEU SER PRO SER SER HIS HIS SEQRES 16 A 340 GLY HIS SER LEU VAL PRO PHE ILE ASN LEU LEU GLY ILE SEQRES 17 A 340 ILE TYR GLN ILE ARG ASP ASP TYR LEU ASN LEU LYS ASP SEQRES 18 A 340 PHE GLN MET SER SER GLU LYS GLY PHE ALA GLU ASP ILE SEQRES 19 A 340 THR GLU GLY LYS LEU SER PHE PRO ILE VAL HIS ALA LEU SEQRES 20 A 340 ASN PHE THR LYS THR LYS GLY GLN THR GLU GLN HIS ASN SEQRES 21 A 340 GLU ILE LEU ARG ILE LEU LEU LEU ARG THR SER ASP LYS SEQRES 22 A 340 ASP ILE LYS LEU LYS LEU ILE GLN ILE LEU GLU PHE ASP SEQRES 23 A 340 THR ASN SER LEU ALA TYR THR LYS ASN PHE ILE ASN GLN SEQRES 24 A 340 LEU VAL ASN MET ILE LYS ASN ASP ASN GLU ASN LYS TYR SEQRES 25 A 340 LEU PRO ASP LEU ALA SER HIS SER ASP THR ALA THR ASN SEQRES 26 A 340 LEU HIS ASP GLU LEU LEU TYR ILE ILE ASP HIS LEU SER SEQRES 27 A 340 GLU LEU SEQRES 1 B 340 MET THR LYS ASN LYS MET GLU ALA LYS ILE ASP GLU LEU SEQRES 2 B 340 ILE ASN ASN ASP PRO VAL TRP SER SER GLN ASN GLU SER SEQRES 3 B 340 LEU ILE SER LYS PRO TYR ASN HIS ILE LEU LEU LYS PRO SEQRES 4 B 340 GLY LYS ASN PHE ARG LEU ASN LEU ILE VAL GLN ILE ASN SEQRES 5 B 340 ARG VAL MET ASN LEU PRO LYS ASP GLN LEU ALA ILE VAL SEQRES 6 B 340 SER GLN ILE VAL GLU LEU LEU HIS ASN SER SER LEU LEU SEQRES 7 B 340 ILE ASP ASP ILE GLU ASP ASN ALA PRO LEU ARG ARG GLY SEQRES 8 B 340 GLN THR THR SER HIS LEU ILE PHE GLY VAL PRO SER THR SEQRES 9 B 340 ILE ASN THR ALA ASN TYR MET TYR PHE ARG ALA MET GLN SEQRES 10 B 340 LEU VAL SER GLN LEU THR THR LYS GLU PRO LEU TYR HIS SEQRES 11 B 340 ASN LEU ILE THR ILE PHE ASN GLU GLU LEU ILE ASN LEU SEQRES 12 B 340 HIS ARG GLY GLN GLY LEU ASP ILE TYR TRP ARG ASP PHE SEQRES 13 B 340 LEU PRO GLU ILE ILE PRO THR GLN GLU MET TYR LEU ASN SEQRES 14 B 340 MET VAL MET ASN LYS THR GLY GLY LEU PHE ARG LEU THR SEQRES 15 B 340 LEU ARG LEU MET GLU ALA LEU SER PRO SER SER HIS HIS SEQRES 16 B 340 GLY HIS SER LEU VAL PRO PHE ILE ASN LEU LEU GLY ILE SEQRES 17 B 340 ILE TYR GLN ILE ARG ASP ASP TYR LEU ASN LEU LYS ASP SEQRES 18 B 340 PHE GLN MET SER SER GLU LYS GLY PHE ALA GLU ASP ILE SEQRES 19 B 340 THR GLU GLY LYS LEU SER PHE PRO ILE VAL HIS ALA LEU SEQRES 20 B 340 ASN PHE THR LYS THR LYS GLY GLN THR GLU GLN HIS ASN SEQRES 21 B 340 GLU ILE LEU ARG ILE LEU LEU LEU ARG THR SER ASP LYS SEQRES 22 B 340 ASP ILE LYS LEU LYS LEU ILE GLN ILE LEU GLU PHE ASP SEQRES 23 B 340 THR ASN SER LEU ALA TYR THR LYS ASN PHE ILE ASN GLN SEQRES 24 B 340 LEU VAL ASN MET ILE LYS ASN ASP ASN GLU ASN LYS TYR SEQRES 25 B 340 LEU PRO ASP LEU ALA SER HIS SER ASP THR ALA THR ASN SEQRES 26 B 340 LEU HIS ASP GLU LEU LEU TYR ILE ILE ASP HIS LEU SER SEQRES 27 B 340 GLU LEU HET MG A1301 1 HET MG A1302 1 HET M0N A 901 20 HET MG B1303 1 HET MG B1304 1 HET M0N B 902 20 HETNAM MG MAGNESIUM ION HETNAM M0N (1-HYDROXY-2-IMIDAZO[1,2-A]PYRIDIN-3-YLETHANE-1,1- HETNAM 2 M0N DIYL)BIS(PHOSPHONIC ACID) HETSYN M0N MINODRONATE; 1-HYDROXY-2-(5,6,7,8-TETRAHYDROIMIDAZO[1, HETSYN 2 M0N 2-A]PYRIDIN-3-YL)ETHANE-1,1-DIYLDIPHOSPONIC ACID; (1- HETSYN 3 M0N HYDROXY-2-IMIDAZO[1,2-A]PYRIDIN-3-YL-ETHYLIDENE)-1,1- HETSYN 4 M0N BISPHOSPHONIC ACID FORMUL 3 MG 4(MG 2+) FORMUL 5 M0N 2(C9 H12 N2 O7 P2) FORMUL 9 HOH *326(H2 O) HELIX 1 1 ASN A 4 ASN A 15 1 12 HELIX 2 2 SER A 21 SER A 29 1 9 HELIX 3 3 SER A 29 LEU A 36 1 8 HELIX 4 4 ASN A 42 ASN A 56 1 15 HELIX 5 5 PRO A 58 ASP A 84 1 27 HELIX 6 6 THR A 94 GLY A 100 1 7 HELIX 7 7 GLY A 100 SER A 120 1 21 HELIX 8 8 LYS A 125 PHE A 156 1 32 HELIX 9 9 THR A 163 THR A 175 1 13 HELIX 10 10 THR A 175 SER A 190 1 16 HELIX 11 11 LEU A 199 SER A 225 1 27 HELIX 12 12 ALA A 231 GLY A 237 1 7 HELIX 13 13 SER A 240 LYS A 253 1 14 HELIX 14 14 GLN A 255 ARG A 269 1 15 HELIX 15 15 ASP A 272 ASP A 286 1 15 HELIX 16 16 ASN A 288 ASN A 306 1 19 HELIX 17 17 ASN B 4 ASN B 15 1 12 HELIX 18 18 SER B 21 LEU B 37 1 17 HELIX 19 19 ASN B 42 ASN B 56 1 15 HELIX 20 20 PRO B 58 ASP B 84 1 27 HELIX 21 21 THR B 94 GLY B 100 1 7 HELIX 22 22 GLY B 100 VAL B 119 1 20 HELIX 23 23 SER B 120 LEU B 122 5 3 HELIX 24 24 LYS B 125 LEU B 157 1 33 HELIX 25 25 THR B 163 THR B 175 1 13 HELIX 26 26 THR B 175 SER B 190 1 16 HELIX 27 27 LEU B 199 MET B 224 1 26 HELIX 28 28 ALA B 231 GLY B 237 1 7 HELIX 29 29 SER B 240 LYS B 253 1 14 HELIX 30 30 GLN B 255 LEU B 268 1 14 HELIX 31 31 ASP B 272 ASP B 286 1 15 HELIX 32 32 ASN B 288 ASN B 306 1 19 SHEET 1 A 2 LEU A 88 ARG A 89 0 SHEET 2 A 2 GLN A 92 THR A 93 -1 O GLN A 92 N ARG A 89 SHEET 1 B 2 LEU B 88 ARG B 89 0 SHEET 2 B 2 GLN B 92 THR B 93 -1 O GLN B 92 N ARG B 89 LINK OD1 ASP A 80 MG MG A1301 1555 1555 2.25 LINK OD2 ASP A 80 MG MG A1302 1555 1555 2.12 LINK OD2 ASP A 84 MG MG A1301 1555 1555 2.09 LINK OD2 ASP A 84 MG MG A1302 1555 1555 2.29 LINK O5 M0N A 901 MG MG A1301 1555 1555 2.16 LINK O1 M0N A 901 MG MG A1302 1555 1555 2.31 LINK O5 M0N A 901 MG MG A1302 1555 1555 2.25 LINK OD1 ASP B 80 MG MG B1303 1555 1555 2.04 LINK OD2 ASP B 80 MG MG B1304 1555 1555 2.12 LINK OD2 ASP B 84 MG MG B1303 1555 1555 2.28 LINK OD2 ASP B 84 MG MG B1304 1555 1555 2.33 LINK OD1 ASP B 84 MG MG B1304 1555 1555 3.07 LINK O HOH B 707 MG MG B1304 1555 1555 2.20 LINK O HOH B 708 MG MG B1303 1555 1555 2.48 LINK O1 M0N B 902 MG MG B1303 1555 1555 1.87 LINK O5 M0N B 902 MG MG B1303 1555 1555 2.05 LINK O5 M0N B 902 MG MG B1304 1555 1555 2.12 CISPEP 1 LEU A 157 PRO A 158 0 0.73 CISPEP 2 LEU B 157 PRO B 158 0 0.30 SITE 1 AC1 4 ASP A 80 ASP A 84 M0N A 901 MG A1302 SITE 1 AC2 4 ASP A 80 ASP A 84 M0N A 901 MG A1301 SITE 1 AC3 5 ASP B 80 ASP B 84 HOH B 708 M0N B 902 SITE 2 AC3 5 MG B1304 SITE 1 AC4 6 ASP B 80 ASP B 84 GLN B 147 HOH B 707 SITE 2 AC4 6 M0N B 902 MG B1303 SITE 1 AC5 15 SER A 76 ASP A 80 ASP A 84 ARG A 89 SITE 2 AC5 15 LEU A 143 GLN A 147 LYS A 174 THR A 175 SITE 3 AC5 15 GLN A 211 ASP A 214 LYS A 238 HOH A 722 SITE 4 AC5 15 HOH A 723 MG A1301 MG A1302 SITE 1 AC6 15 ASP B 80 ASP B 84 ARG B 89 LEU B 143 SITE 2 AC6 15 GLN B 147 LYS B 174 THR B 175 GLN B 211 SITE 3 AC6 15 ASP B 214 LYS B 238 HOH B 595 HOH B 707 SITE 4 AC6 15 HOH B 708 MG B1303 MG B1304 CRYST1 46.871 116.051 127.733 90.00 90.00 90.00 P 21 21 21 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 0.021335 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008617 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007829 0.00000