HEADER TRANSFERASE/TRANSFERASE INHIBITOR 03-APR-13 4JZX TITLE CRYSTAL STRUCTURE OF LESHMANIASIS MAJOR FARNESYL DIPHOSPHATE SYNTHASE TITLE 2 IN COMPLEX WITH 3-BUTYL-1-(2,2-DIPHOSPHONOETHYL)PYRIDINIUM, IPP AND TITLE 3 CA2+ COMPND MOL_ID: 1; COMPND 2 MOLECULE: FARNESYL PYROPHOSPHATE SYNTHASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.5.1.1, 2.5.1.10; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LEISHMANIA MAJOR; SOURCE 3 ORGANISM_TAXID: 5664; SOURCE 4 GENE: FPPS, LMJF_22_1360; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; 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: PET28A KEYWDS GERANYL TRANSFERASE, FPPS, FARNESYL PYROPHOSPHATE SYNTHASE, FARNESYL KEYWDS 2 DIPHOSPHATE SYNTHASE, TRANSFERASE-TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.ARIPIRALA,S.GABELLI,L.M.AMZEL REVDAT 4 27-NOV-24 4JZX 1 REMARK SEQADV LINK REVDAT 3 15-NOV-17 4JZX 1 REMARK REVDAT 2 24-SEP-14 4JZX 1 JRNL REVDAT 1 05-MAR-14 4JZX 0 JRNL AUTH S.ARIPIRALA,D.GONZALEZ-PACANOWSKA,E.OLDFIELD,M.KAISER, JRNL AUTH 2 L.M.AMZEL,S.B.GABELLI JRNL TITL STRUCTURAL AND THERMODYNAMIC BASIS OF THE INHIBITION OF JRNL TITL 2 LEISHMANIA MAJOR FARNESYL DIPHOSPHATE SYNTHASE BY JRNL TITL 3 NITROGEN-CONTAINING BISPHOSPHONATES. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 70 802 2014 JRNL REFN ISSN 0907-4449 JRNL PMID 24598749 JRNL DOI 10.1107/S1399004713033221 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.94 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 68610 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) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3477 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4712 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.02 REMARK 3 BIN R VALUE (WORKING SET) : 0.2750 REMARK 3 BIN FREE R VALUE SET COUNT : 223 REMARK 3 BIN FREE R VALUE : 0.3410 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5752 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 74 REMARK 3 SOLVENT ATOMS : 776 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.07 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.90000 REMARK 3 B22 (A**2) : -0.56000 REMARK 3 B33 (A**2) : -0.34000 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): 0.136 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.134 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.080 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.504 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 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): 6026 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8190 ; 1.108 ; 1.961 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 744 ; 4.286 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 272 ;37.669 ;24.522 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1038 ;12.363 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;10.421 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 913 ; 0.075 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4504 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3360 ; 0.195 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4235 ; 0.300 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 722 ; 0.113 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 31 ; 0.120 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 61 ; 0.134 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 33 ; 0.133 ; 0.200 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): 3762 ; 0.556 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5896 ; 0.858 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2600 ; 1.472 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2287 ; 2.317 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 4JZX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-APR-13. REMARK 100 THE DEPOSITION ID IS D_1000078715. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-MAY-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 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 FR-E DW REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54178 REMARK 200 MONOCHROMATOR : VARIMAX MIRRORS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 68699 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.40 REMARK 200 R MERGE FOR SHELL (I) : 0.54500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: FOURIER SYNTHESIS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.24 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, PH 6.5, HANGING DROP, REMARK 280 TEMPERATURE 291K 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 40.21400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.43350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.90250 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 53.43350 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 40.21400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.90250 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: 7530 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27430 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -112.0 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 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 VAL A 119 -72.85 -111.36 REMARK 500 THR A 120 156.58 70.86 REMARK 500 THR A 208 -51.13 -129.84 REMARK 500 VAL B 119 -78.14 -113.56 REMARK 500 THR B 120 159.35 79.21 REMARK 500 THR B 208 -50.68 -130.02 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 CA A 403 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 98 OD1 REMARK 620 2 ASP A 98 OD2 44.5 REMARK 620 3 ASP A 102 OD2 88.5 65.6 REMARK 620 4 ASP A 102 OD1 85.7 94.9 45.9 REMARK 620 5 476 A 402 O15 107.9 66.2 77.7 122.1 REMARK 620 6 HOH A 501 O 165.0 148.5 104.5 97.9 82.6 REMARK 620 7 HOH A 504 O 84.4 98.7 162.7 148.4 89.5 85.0 REMARK 620 8 HOH A 543 O 87.2 131.0 115.2 69.3 160.9 80.5 80.3 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 405 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 98 OD2 REMARK 620 2 ASP A 102 OD2 83.4 REMARK 620 3 476 A 402 O13 94.6 171.0 REMARK 620 4 476 A 402 O15 82.7 82.5 88.5 REMARK 620 5 HOH A 502 O 89.7 93.4 95.3 171.7 REMARK 620 6 HOH A 503 O 173.3 89.9 92.1 97.1 90.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 404 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 250 OD2 REMARK 620 2 476 A 402 O16 101.2 REMARK 620 3 476 A 402 O12 97.0 84.2 REMARK 620 4 HOH A 505 O 89.3 88.4 171.0 REMARK 620 5 HOH A 506 O 161.0 96.4 92.0 83.9 REMARK 620 6 HOH A 545 O 77.8 175.5 91.6 95.9 85.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 403 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 98 OD2 REMARK 620 2 ASP B 98 OD1 43.6 REMARK 620 3 ASP B 102 OD2 86.7 64.9 REMARK 620 4 ASP B 102 OD1 86.0 95.7 46.3 REMARK 620 5 476 B 402 O15 105.8 65.3 79.7 124.4 REMARK 620 6 HOH B 502 O 168.4 147.6 101.8 94.1 83.7 REMARK 620 7 HOH B 504 O 82.8 95.3 158.9 149.8 85.7 91.5 REMARK 620 8 HOH B 527 O 84.7 127.8 114.8 68.7 163.0 84.5 82.4 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 405 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 98 OD1 REMARK 620 2 ASP B 102 OD2 80.8 REMARK 620 3 476 B 402 O13 95.0 167.7 REMARK 620 4 476 B 402 O15 80.9 79.8 88.1 REMARK 620 5 HOH B 503 O 168.4 87.8 96.6 99.5 REMARK 620 6 HOH B 790 O 89.5 93.5 98.1 169.0 88.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 404 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 250 OD2 REMARK 620 2 476 B 402 O16 98.7 REMARK 620 3 476 B 402 O12 96.2 84.5 REMARK 620 4 HOH B 505 O 89.2 88.2 171.5 REMARK 620 5 HOH B 506 O 162.0 97.6 93.0 83.7 REMARK 620 6 HOH B 525 O 81.7 175.9 91.4 95.9 82.6 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPE A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 476 A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPE B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 476 B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 405 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4JZB RELATED DB: PDB REMARK 900 LMFPPS IN COMPLEX WITH 30OB, IPP AND CA2+ REMARK 900 RELATED ID: 4K10 RELATED DB: PDB DBREF 4JZX A 2 362 UNP Q4QBL1 Q4QBL1_LEIMA 2 362 DBREF 4JZX B 2 362 UNP Q4QBL1 Q4QBL1_LEIMA 2 362 SEQADV 4JZX FME A 1 UNP Q4QBL1 EXPRESSION TAG SEQADV 4JZX FME B 1 UNP Q4QBL1 EXPRESSION TAG SEQRES 1 A 362 FME ALA HIS MET GLU ARG PHE GLN LYS VAL TYR GLU GLU SEQRES 2 A 362 VAL GLN GLU PHE LEU LEU GLY ASP ALA GLU LYS ARG PHE SEQRES 3 A 362 GLU MET ASP VAL HIS ARG LYS GLY TYR LEU LYS SER MET SEQRES 4 A 362 MET ASP THR THR CYS LEU GLY GLY LYS TYR ASN ARG GLY SEQRES 5 A 362 LEU CYS VAL VAL ASP VAL ALA GLU ALA MET ALA LYS ASP SEQRES 6 A 362 THR GLN MET ASP ALA ALA ALA MET GLU ARG VAL LEU HIS SEQRES 7 A 362 ASP ALA CYS VAL CYS GLY TRP MET ILE GLU MET LEU GLN SEQRES 8 A 362 ALA HIS PHE LEU VAL GLU ASP ASP ILE MET ASP HIS SER SEQRES 9 A 362 LYS THR ARG ARG GLY LYS PRO CYS TRP TYR LEU HIS PRO SEQRES 10 A 362 GLY VAL THR ALA GLN VAL ALA ILE ASN ASP GLY LEU ILE SEQRES 11 A 362 LEU LEU ALA TRP ALA THR GLN MET ALA LEU HIS TYR PHE SEQRES 12 A 362 ALA ASP ARG PRO PHE LEU ALA GLU VAL LEU ARG VAL PHE SEQRES 13 A 362 HIS ASP VAL ASP LEU THR THR THR ILE GLY GLN LEU TYR SEQRES 14 A 362 ASP VAL THR SER MET VAL ASP SER ALA LYS LEU ASP ALA SEQRES 15 A 362 LYS VAL ALA HIS ALA ASN THR THR ASP TYR VAL GLU TYR SEQRES 16 A 362 THR PRO PHE ASN HIS ARG ARG ILE VAL VAL TYR LYS THR SEQRES 17 A 362 ALA TYR TYR THR TYR TRP LEU PRO LEU VAL MET GLY LEU SEQRES 18 A 362 LEU VAL SER GLY THR LEU GLU LYS VAL ASP LYS LYS ALA SEQRES 19 A 362 THR HIS LYS VAL ALA MET VAL MET GLY GLU TYR PHE GLN SEQRES 20 A 362 VAL GLN ASP ASP VAL MET ASP CYS PHE THR PRO PRO GLU SEQRES 21 A 362 LYS LEU GLY LYS ILE GLY THR ASP ILE GLU ASP ALA LYS SEQRES 22 A 362 CYS SER TRP LEU ALA VAL THR PHE LEU THR THR ALA PRO SEQRES 23 A 362 ALA GLU LYS VAL ALA GLU PHE LYS ALA ASN TYR GLY SER SEQRES 24 A 362 THR ASP PRO ALA ALA VAL ALA VAL ILE LYS GLN LEU TYR SEQRES 25 A 362 THR GLU GLN ASN LEU LEU ALA ARG PHE GLU GLU TYR GLU SEQRES 26 A 362 LYS ALA VAL VAL ALA GLU VAL GLU GLN LEU ILE ALA ALA SEQRES 27 A 362 LEU GLU ALA GLN ASN ALA ALA PHE ALA ALA SER VAL LYS SEQRES 28 A 362 VAL LEU TRP SER LYS THR TYR LYS ARG GLN LYS SEQRES 1 B 362 FME ALA HIS MET GLU ARG PHE GLN LYS VAL TYR GLU GLU SEQRES 2 B 362 VAL GLN GLU PHE LEU LEU GLY ASP ALA GLU LYS ARG PHE SEQRES 3 B 362 GLU MET ASP VAL HIS ARG LYS GLY TYR LEU LYS SER MET SEQRES 4 B 362 MET ASP THR THR CYS LEU GLY GLY LYS TYR ASN ARG GLY SEQRES 5 B 362 LEU CYS VAL VAL ASP VAL ALA GLU ALA MET ALA LYS ASP SEQRES 6 B 362 THR GLN MET ASP ALA ALA ALA MET GLU ARG VAL LEU HIS SEQRES 7 B 362 ASP ALA CYS VAL CYS GLY TRP MET ILE GLU MET LEU GLN SEQRES 8 B 362 ALA HIS PHE LEU VAL GLU ASP ASP ILE MET ASP HIS SER SEQRES 9 B 362 LYS THR ARG ARG GLY LYS PRO CYS TRP TYR LEU HIS PRO SEQRES 10 B 362 GLY VAL THR ALA GLN VAL ALA ILE ASN ASP GLY LEU ILE SEQRES 11 B 362 LEU LEU ALA TRP ALA THR GLN MET ALA LEU HIS TYR PHE SEQRES 12 B 362 ALA ASP ARG PRO PHE LEU ALA GLU VAL LEU ARG VAL PHE SEQRES 13 B 362 HIS ASP VAL ASP LEU THR THR THR ILE GLY GLN LEU TYR SEQRES 14 B 362 ASP VAL THR SER MET VAL ASP SER ALA LYS LEU ASP ALA SEQRES 15 B 362 LYS VAL ALA HIS ALA ASN THR THR ASP TYR VAL GLU TYR SEQRES 16 B 362 THR PRO PHE ASN HIS ARG ARG ILE VAL VAL TYR LYS THR SEQRES 17 B 362 ALA TYR TYR THR TYR TRP LEU PRO LEU VAL MET GLY LEU SEQRES 18 B 362 LEU VAL SER GLY THR LEU GLU LYS VAL ASP LYS LYS ALA SEQRES 19 B 362 THR HIS LYS VAL ALA MET VAL MET GLY GLU TYR PHE GLN SEQRES 20 B 362 VAL GLN ASP ASP VAL MET ASP CYS PHE THR PRO PRO GLU SEQRES 21 B 362 LYS LEU GLY LYS ILE GLY THR ASP ILE GLU ASP ALA LYS SEQRES 22 B 362 CYS SER TRP LEU ALA VAL THR PHE LEU THR THR ALA PRO SEQRES 23 B 362 ALA GLU LYS VAL ALA GLU PHE LYS ALA ASN TYR GLY SER SEQRES 24 B 362 THR ASP PRO ALA ALA VAL ALA VAL ILE LYS GLN LEU TYR SEQRES 25 B 362 THR GLU GLN ASN LEU LEU ALA ARG PHE GLU GLU TYR GLU SEQRES 26 B 362 LYS ALA VAL VAL ALA GLU VAL GLU GLN LEU ILE ALA ALA SEQRES 27 B 362 LEU GLU ALA GLN ASN ALA ALA PHE ALA ALA SER VAL LYS SEQRES 28 B 362 VAL LEU TRP SER LYS THR TYR LYS ARG GLN LYS MODRES 4JZX FME A 1 MET N-FORMYLMETHIONINE MODRES 4JZX FME B 1 MET N-FORMYLMETHIONINE HET FME A 1 10 HET FME B 1 10 HET IPE A 401 14 HET 476 A 402 20 HET CA A 403 1 HET CA A 404 1 HET CA A 405 1 HET IPE B 401 14 HET 476 B 402 20 HET CA B 403 1 HET CA B 404 1 HET CA B 405 1 HETNAM FME N-FORMYLMETHIONINE HETNAM IPE 3-METHYLBUT-3-ENYL TRIHYDROGEN DIPHOSPHATE HETNAM 476 3-BUTYL-1-(2,2-DIPHOSPHONOETHYL)PYRIDINIUM HETNAM CA CALCIUM ION HETSYN IPE ISOPENTENYL PYROPHOSPHATE FORMUL 1 FME 2(C6 H11 N O3 S) FORMUL 3 IPE 2(C5 H12 O7 P2) FORMUL 4 476 2(C11 H20 N O6 P2 1+) FORMUL 5 CA 6(CA 2+) FORMUL 13 HOH *776(H2 O) HELIX 1 1 HIS A 3 GLU A 27 1 25 HELIX 2 2 ASP A 29 LEU A 45 1 17 HELIX 3 3 TYR A 49 THR A 66 1 18 HELIX 4 4 ASP A 69 ASP A 102 1 34 HELIX 5 5 TRP A 113 HIS A 116 5 4 HELIX 6 6 THR A 120 PHE A 143 1 24 HELIX 7 7 PHE A 148 THR A 172 1 25 HELIX 8 8 ASP A 176 LEU A 180 5 5 HELIX 9 9 THR A 196 THR A 208 1 13 HELIX 10 10 THR A 208 TYR A 213 1 6 HELIX 11 11 TYR A 213 SER A 224 1 12 HELIX 12 12 THR A 226 VAL A 230 5 5 HELIX 13 13 ASP A 231 THR A 257 1 27 HELIX 14 14 PRO A 258 GLY A 263 1 6 HELIX 15 15 SER A 275 ALA A 285 1 11 HELIX 16 16 PRO A 286 ALA A 295 1 10 HELIX 17 17 ASP A 301 GLN A 315 1 15 HELIX 18 18 ASN A 316 ASN A 343 1 28 HELIX 19 19 ASN A 343 TYR A 358 1 16 HELIX 20 20 HIS B 3 GLU B 27 1 25 HELIX 21 21 ASP B 29 LEU B 45 1 17 HELIX 22 22 TYR B 49 ASP B 65 1 17 HELIX 23 23 ASP B 69 ASP B 102 1 34 HELIX 24 24 TRP B 113 HIS B 116 5 4 HELIX 25 25 THR B 120 PHE B 143 1 24 HELIX 26 26 PHE B 148 THR B 172 1 25 HELIX 27 27 ASP B 176 LEU B 180 5 5 HELIX 28 28 THR B 196 THR B 208 1 13 HELIX 29 29 THR B 208 TYR B 213 1 6 HELIX 30 30 TYR B 213 SER B 224 1 12 HELIX 31 31 THR B 226 VAL B 230 5 5 HELIX 32 32 ASP B 231 THR B 257 1 27 HELIX 33 33 PRO B 258 GLY B 263 1 6 HELIX 34 34 SER B 275 ALA B 285 1 11 HELIX 35 35 PRO B 286 TYR B 297 1 12 HELIX 36 36 ASP B 301 GLN B 315 1 15 HELIX 37 37 ASN B 316 ASN B 343 1 28 HELIX 38 38 ASN B 343 LYS B 356 1 14 SHEET 1 A 2 THR A 106 ARG A 107 0 SHEET 2 A 2 LYS A 110 PRO A 111 -1 O LYS A 110 N ARG A 107 SHEET 1 B 2 THR B 106 ARG B 107 0 SHEET 2 B 2 LYS B 110 PRO B 111 -1 O LYS B 110 N ARG B 107 LINK C FME A 1 N ALA A 2 1555 1555 1.33 LINK C FME B 1 N ALA B 2 1555 1555 1.34 LINK OD1 ASP A 98 CA CA A 403 1555 1555 2.35 LINK OD2 ASP A 98 CA CA A 403 1555 1555 3.13 LINK OD2 ASP A 98 CA CA A 405 1555 1555 2.33 LINK OD2 ASP A 102 CA CA A 403 1555 1555 2.45 LINK OD1 ASP A 102 CA CA A 403 1555 1555 2.99 LINK OD2 ASP A 102 CA CA A 405 1555 1555 2.29 LINK OD2 ASP A 250 CA CA A 404 1555 1555 2.32 LINK O15 476 A 402 CA CA A 403 1555 1555 2.43 LINK O16 476 A 402 CA CA A 404 1555 1555 2.25 LINK O12 476 A 402 CA CA A 404 1555 1555 2.31 LINK O13 476 A 402 CA CA A 405 1555 1555 2.16 LINK O15 476 A 402 CA CA A 405 1555 1555 2.35 LINK CA CA A 403 O HOH A 501 1555 1555 2.34 LINK CA CA A 403 O HOH A 504 1555 1555 2.36 LINK CA CA A 403 O HOH A 543 1555 1555 2.40 LINK CA CA A 404 O HOH A 505 1555 1555 2.39 LINK CA CA A 404 O HOH A 506 1555 1555 2.40 LINK CA CA A 404 O HOH A 545 1555 1555 2.46 LINK CA CA A 405 O HOH A 502 1555 1555 2.30 LINK CA CA A 405 O HOH A 503 1555 1555 2.32 LINK OD2 ASP B 98 CA CA B 403 1555 1555 2.33 LINK OD1 ASP B 98 CA CA B 403 1555 1555 3.16 LINK OD1 ASP B 98 CA CA B 405 1555 1555 2.32 LINK OD2 ASP B 102 CA CA B 403 1555 1555 2.37 LINK OD1 ASP B 102 CA CA B 403 1555 1555 3.00 LINK OD2 ASP B 102 CA CA B 405 1555 1555 2.36 LINK OD2 ASP B 250 CA CA B 404 1555 1555 2.32 LINK O15 476 B 402 CA CA B 403 1555 1555 2.40 LINK O16 476 B 402 CA CA B 404 1555 1555 2.25 LINK O12 476 B 402 CA CA B 404 1555 1555 2.25 LINK O13 476 B 402 CA CA B 405 1555 1555 2.11 LINK O15 476 B 402 CA CA B 405 1555 1555 2.40 LINK CA CA B 403 O HOH B 502 1555 1555 2.41 LINK CA CA B 403 O HOH B 504 1555 1555 2.35 LINK CA CA B 403 O HOH B 527 1555 1555 2.39 LINK CA CA B 404 O HOH B 505 1555 1555 2.42 LINK CA CA B 404 O HOH B 506 1555 1555 2.47 LINK CA CA B 404 O HOH B 525 1555 1555 2.41 LINK CA CA B 405 O HOH B 503 1555 1555 2.35 LINK CA CA B 405 O HOH B 790 1555 1555 2.19 SITE 1 AC1 18 GLY A 47 LYS A 48 ARG A 51 GLN A 91 SITE 2 AC1 18 ARG A 108 THR A 208 TYR A 211 PHE A 246 SITE 3 AC1 18 GLN A 247 ASP A 250 476 A 402 HOH A 509 SITE 4 AC1 18 HOH A 513 HOH A 533 HOH A 551 HOH A 553 SITE 5 AC1 18 HOH A 573 HOH A 597 SITE 1 AC2 18 PHE A 94 ASP A 98 ASP A 102 ARG A 107 SITE 2 AC2 18 THR A 163 GLN A 167 LYS A 207 THR A 208 SITE 3 AC2 18 ASP A 250 LYS A 264 IPE A 401 CA A 403 SITE 4 AC2 18 CA A 404 CA A 405 HOH A 504 HOH A 534 SITE 5 AC2 18 HOH A 562 ASN B 126 SITE 1 AC3 7 ASP A 98 ASP A 102 476 A 402 CA A 405 SITE 2 AC3 7 HOH A 501 HOH A 504 HOH A 543 SITE 1 AC4 5 ASP A 250 476 A 402 HOH A 505 HOH A 506 SITE 2 AC4 5 HOH A 545 SITE 1 AC5 6 ASP A 98 ASP A 102 476 A 402 CA A 403 SITE 2 AC5 6 HOH A 502 HOH A 503 SITE 1 AC6 18 GLY B 47 LYS B 48 ARG B 51 GLN B 91 SITE 2 AC6 18 ARG B 108 THR B 208 TYR B 211 PHE B 246 SITE 3 AC6 18 GLN B 247 ASP B 250 476 B 402 HOH B 509 SITE 4 AC6 18 HOH B 512 HOH B 528 HOH B 539 HOH B 560 SITE 5 AC6 18 HOH B 563 HOH B 584 SITE 1 AC7 17 ASN A 126 PHE B 94 ASP B 98 ASP B 102 SITE 2 AC7 17 ARG B 107 GLN B 167 LYS B 207 THR B 208 SITE 3 AC7 17 ASP B 250 LYS B 264 IPE B 401 CA B 403 SITE 4 AC7 17 CA B 404 CA B 405 HOH B 504 HOH B 595 SITE 5 AC7 17 HOH B 608 SITE 1 AC8 7 ASP B 98 ASP B 102 476 B 402 CA B 405 SITE 2 AC8 7 HOH B 502 HOH B 504 HOH B 527 SITE 1 AC9 5 ASP B 250 476 B 402 HOH B 505 HOH B 506 SITE 2 AC9 5 HOH B 525 SITE 1 BC1 6 ASP B 98 ASP B 102 476 B 402 CA B 403 SITE 2 BC1 6 HOH B 503 HOH B 790 CRYST1 80.428 85.805 106.867 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 0.012433 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011654 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009357 0.00000 HETATM 1 N FME A 1 34.571 48.368 25.250 1.00 39.33 N HETATM 2 CN FME A 1 33.502 49.192 24.957 1.00 39.73 C HETATM 3 O1 FME A 1 33.658 50.400 24.816 1.00 40.56 O HETATM 4 CA FME A 1 35.639 48.547 24.260 1.00 38.93 C HETATM 5 CB FME A 1 36.989 48.153 24.863 1.00 39.31 C HETATM 6 CG FME A 1 37.374 49.083 26.018 1.00 41.02 C HETATM 7 SD FME A 1 38.676 48.360 26.968 1.00 45.15 S HETATM 8 CE FME A 1 38.790 49.485 28.323 1.00 44.51 C HETATM 9 C FME A 1 35.286 47.758 23.027 1.00 37.89 C HETATM 10 O FME A 1 34.669 46.688 23.134 1.00 37.60 O