HEADER TRANSFERASE/TRANSFERASE INHIBITOR 02-APR-13 4JZB TITLE CRYSTAL STRUCTURE OF LESHMANIASIS MAJOR FARNESYL DIPHOSPHATE SYNTHASE TITLE 2 IN COMPLEX WITH 1-(2-HYDROXY-2,2-DIPHOSPHONOETHYL)-3- TITLE 3 PHENYLPYRIDINIUM, IPP AND 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: 562; 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, CYTOSOLIC, TRANSFERASE-TRANSFERASE INHIBITOR KEYWDS 3 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.ARIPIRALA,L.M.AMZEL,S.GABELLI REVDAT 4 15-NOV-17 4JZB 1 REMARK REVDAT 3 24-SEP-14 4JZB 1 JRNL REVDAT 2 05-MAR-14 4JZB 1 JRNL REVDAT 1 12-FEB-14 4JZB 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. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 66.96 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 58732 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) : 0.175 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2971 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3837 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.81 REMARK 3 BIN R VALUE (WORKING SET) : 0.2500 REMARK 3 BIN FREE R VALUE SET COUNT : 192 REMARK 3 BIN FREE R VALUE : 0.3250 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 : 82 REMARK 3 SOLVENT ATOMS : 696 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.04 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.72000 REMARK 3 B22 (A**2) : -0.67000 REMARK 3 B33 (A**2) : -0.05000 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): 0.159 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.140 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.087 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.884 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.950 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6027 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8195 ; 1.076 ; 1.962 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 742 ; 4.298 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 272 ;36.973 ;24.485 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1035 ;12.503 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ; 9.251 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 911 ; 0.074 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4512 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3320 ; 0.192 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4225 ; 0.298 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 675 ; 0.116 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 35 ; 0.162 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 52 ; 0.165 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 35 ; 0.115 ; 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): 3647 ; 0.600 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5884 ; 1.181 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2475 ; 1.710 ; 4.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2304 ; 2.667 ; 5.000 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 4JZB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-APR-13. REMARK 100 THE DEPOSITION ID IS D_1000078693. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-JUL-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 : 58810 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 66.960 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.07200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : 0.47300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, PH 6.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, 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 40.18050 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.53700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.98350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 53.53700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 40.18050 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.98350 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: 7770 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27390 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -136.0 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 -76.64 -112.01 REMARK 500 THR A 120 156.23 75.62 REMARK 500 THR A 208 -50.33 -128.32 REMARK 500 VAL B 119 -78.35 -112.48 REMARK 500 THR B 120 157.66 78.84 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 NA A 406 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 561 O REMARK 620 2 HOH A 554 O 68.9 REMARK 620 3 GLU A 270 OE1 153.6 86.6 REMARK 620 4 HOH A 671 O 89.4 158.2 114.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 406 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 562 O REMARK 620 2 HOH B 615 O 64.5 REMARK 620 3 HOH B 766 O 89.0 153.4 REMARK 620 4 GLU B 270 OE1 147.8 87.4 117.2 REMARK 620 N 1 2 3 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 HOH B 511 O REMARK 620 2 ASP B 98 OD1 85.0 REMARK 620 3 ASP B 102 OD2 93.7 87.3 REMARK 620 4 HOH B 503 O 90.1 174.6 90.9 REMARK 620 5 P2H B 402 O16 97.2 87.9 167.7 94.8 REMARK 620 6 P2H B 402 O10 170.6 88.2 79.5 96.5 89.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 401 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 102 OD2 REMARK 620 2 ASP A 98 OD2 92.7 REMARK 620 3 HOH A 502 O 94.4 86.3 REMARK 620 4 HOH A 503 O 89.9 176.0 90.5 REMARK 620 5 P2H A 405 O16 169.0 86.5 96.5 91.5 REMARK 620 6 P2H A 405 O10 81.2 88.1 172.7 95.3 87.8 REMARK 620 N 1 2 3 4 5 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 HOH B 504 O REMARK 620 2 ASP B 98 OD2 82.1 REMARK 620 3 HOH B 512 O 80.4 96.2 REMARK 620 4 ASP B 102 OD2 157.9 84.2 118.4 REMARK 620 5 HOH B 502 O 90.3 172.0 85.0 102.3 REMARK 620 6 ASP B 102 OD1 150.0 92.5 70.8 47.7 95.4 REMARK 620 7 P2H B 402 O10 88.7 95.6 162.7 75.4 81.7 121.3 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 402 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 504 O REMARK 620 2 ASP A 98 OD1 86.1 REMARK 620 3 HOH A 501 O 86.8 172.5 REMARK 620 4 ASP A 102 OD2 160.7 82.7 104.7 REMARK 620 5 HOH A 511 O 82.3 95.0 81.8 114.3 REMARK 620 6 ASP A 102 OD1 148.6 88.4 96.5 46.9 67.4 REMARK 620 7 P2H A 405 O10 89.7 98.9 83.3 76.6 163.5 121.7 REMARK 620 N 1 2 3 4 5 6 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 HOH B 505 O 91.5 REMARK 620 3 HOH B 506 O 165.0 80.2 REMARK 620 4 HOH B 514 O 84.6 94.3 83.5 REMARK 620 5 P2H B 402 O11 95.4 89.3 97.0 176.5 REMARK 620 6 P2H B 402 O15 92.5 171.5 97.3 93.6 82.9 REMARK 620 N 1 2 3 4 5 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 250 OD2 REMARK 620 2 HOH A 505 O 91.5 REMARK 620 3 HOH A 506 O 162.7 80.9 REMARK 620 4 HOH A 512 O 79.2 95.2 86.0 REMARK 620 5 P2H A 405 O11 98.3 90.1 97.2 174.2 REMARK 620 6 P2H A 405 O15 91.5 172.8 97.9 91.8 82.9 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 CA A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA 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 IPE A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE P2H A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPE B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE P2H B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 406 DBREF 4JZB A 2 362 UNP Q4QBL1 Q4QBL1_LEIMA 2 362 DBREF 4JZB B 2 362 UNP Q4QBL1 Q4QBL1_LEIMA 2 362 SEQADV 4JZB FME A 1 UNP Q4QBL1 EXPRESSION TAG SEQADV 4JZB 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 4JZB FME A 1 MET N-FORMYLMETHIONINE MODRES 4JZB FME B 1 MET N-FORMYLMETHIONINE HET FME A 1 10 HET FME B 1 10 HET CA A 401 1 HET CA A 402 1 HET CA A 403 1 HET IPE A 404 14 HET P2H A 405 23 HET NA A 406 1 HET IPE B 401 14 HET P2H B 402 23 HET CA B 403 1 HET CA B 404 1 HET CA B 405 1 HET NA B 406 1 HETNAM FME N-FORMYLMETHIONINE HETNAM CA CALCIUM ION HETNAM IPE 3-METHYLBUT-3-ENYL TRIHYDROGEN DIPHOSPHATE HETNAM P2H 1-(2-HYDROXY-2,2-DIPHOSPHONOETHYL)-3-PHENYLPYRIDINIUM HETNAM NA SODIUM ION HETSYN IPE ISOPENTENYL PYROPHOSPHATE FORMUL 1 FME 2(C6 H11 N O3 S) FORMUL 3 CA 6(CA 2+) FORMUL 6 IPE 2(C5 H12 O7 P2) FORMUL 7 P2H 2(C13 H16 N O7 P2 1+) FORMUL 8 NA 2(NA 1+) FORMUL 15 HOH *696(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 THR B 66 1 18 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 ALA B 341 1 26 HELIX 38 38 ASN B 343 TYR B 358 1 16 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 1.34 LINK C FME B 1 N ALA B 2 1555 1555 1.34 LINK NA NA A 406 O HOH A 561 1555 1555 2.01 LINK NA NA B 406 O HOH B 562 1555 1555 2.18 LINK NA NA A 406 O HOH A 554 1555 1555 2.20 LINK CA CA B 403 O HOH B 511 1555 1555 2.21 LINK OD2 ASP A 102 CA CA A 401 1555 1555 2.22 LINK OD1 ASP B 98 CA CA B 403 1555 1555 2.23 LINK OD2 ASP A 98 CA CA A 401 1555 1555 2.24 LINK CA CA A 401 O HOH A 502 1555 1555 2.25 LINK OD2 ASP B 102 CA CA B 403 1555 1555 2.27 LINK NA NA B 406 O HOH B 615 1555 1555 2.28 LINK CA CA B 403 O HOH B 503 1555 1555 2.29 LINK CA CA B 405 O HOH B 504 1555 1555 2.30 LINK CA CA A 402 O HOH A 504 1555 1555 2.32 LINK OD2 ASP B 98 CA CA B 405 1555 1555 2.32 LINK CA CA A 401 O HOH A 503 1555 1555 2.34 LINK OD2 ASP B 250 CA CA B 404 1555 1555 2.34 LINK OD1 ASP A 98 CA CA A 402 1555 1555 2.35 LINK OD2 ASP A 250 CA CA A 403 1555 1555 2.35 LINK CA CA B 405 O HOH B 512 1555 1555 2.37 LINK CA CA A 403 O HOH A 505 1555 1555 2.37 LINK CA CA A 403 O HOH A 506 1555 1555 2.38 LINK CA CA A 402 O HOH A 501 1555 1555 2.38 LINK OD2 ASP B 102 CA CA B 405 1555 1555 2.39 LINK CA CA B 405 O HOH B 502 1555 1555 2.40 LINK CA CA B 404 O HOH B 505 1555 1555 2.42 LINK OD2 ASP A 102 CA CA A 402 1555 1555 2.44 LINK CA CA B 404 O HOH B 506 1555 1555 2.45 LINK CA CA B 404 O HOH B 514 1555 1555 2.46 LINK CA CA A 403 O HOH A 512 1555 1555 2.50 LINK CA CA A 402 O HOH A 511 1555 1555 2.53 LINK NA NA B 406 O HOH B 766 1555 1555 2.72 LINK OE1 GLU B 270 NA NA B 406 1555 1555 2.81 LINK OD1 ASP B 102 CA CA B 405 1555 1555 2.89 LINK OE1 GLU A 270 NA NA A 406 1555 1555 2.91 LINK OD1 ASP A 102 CA CA A 402 1555 1555 2.92 LINK NA NA A 406 O HOH A 671 1555 1555 2.92 LINK O16 P2H B 402 CA CA B 403 1555 1555 2.06 LINK CA CA A 401 O16 P2H A 405 1555 1555 2.11 LINK O11 P2H B 402 CA CA B 404 1555 1555 2.24 LINK CA CA A 403 O11 P2H A 405 1555 1555 2.25 LINK O15 P2H B 402 CA CA B 404 1555 1555 2.27 LINK O10 P2H B 402 CA CA B 403 1555 1555 2.31 LINK CA CA A 403 O15 P2H A 405 1555 1555 2.32 LINK CA CA A 401 O10 P2H A 405 1555 1555 2.33 LINK CA CA A 402 O10 P2H A 405 1555 1555 2.34 LINK O10 P2H B 402 CA CA B 405 1555 1555 2.40 SITE 1 AC1 6 ASP A 98 ASP A 102 CA A 402 P2H A 405 SITE 2 AC1 6 HOH A 502 HOH A 503 SITE 1 AC2 7 ASP A 98 ASP A 102 CA A 401 P2H A 405 SITE 2 AC2 7 HOH A 501 HOH A 504 HOH A 511 SITE 1 AC3 5 ASP A 250 P2H A 405 HOH A 505 HOH A 506 SITE 2 AC3 5 HOH A 512 SITE 1 AC4 18 GLY A 47 LYS A 48 ARG A 51 GLN A 91 SITE 2 AC4 18 ARG A 108 THR A 208 TYR A 211 PHE A 246 SITE 3 AC4 18 GLN A 247 ASP A 250 P2H A 405 HOH A 509 SITE 4 AC4 18 HOH A 531 HOH A 536 HOH A 552 HOH A 587 SITE 5 AC4 18 HOH A 617 HOH A 645 SITE 1 AC5 18 PHE A 94 ASP A 98 MET A 101 ASP A 102 SITE 2 AC5 18 ARG A 107 THR A 163 GLN A 167 LYS A 207 SITE 3 AC5 18 THR A 208 ASP A 250 LYS A 264 CA A 401 SITE 4 AC5 18 CA A 402 CA A 403 IPE A 404 HOH A 504 SITE 5 AC5 18 HOH A 513 HOH A 532 SITE 1 AC6 5 GLY A 266 GLU A 270 HOH A 554 HOH A 561 SITE 2 AC6 5 HOH A 671 SITE 1 AC7 18 GLY B 47 LYS B 48 ARG B 51 GLN B 91 SITE 2 AC7 18 ARG B 108 THR B 208 TYR B 211 PHE B 246 SITE 3 AC7 18 GLN B 247 ASP B 250 P2H B 402 HOH B 509 SITE 4 AC7 18 HOH B 523 HOH B 527 HOH B 542 HOH B 580 SITE 5 AC7 18 HOH B 622 HOH B 651 SITE 1 AC8 18 PHE B 94 ASP B 98 MET B 101 ASP B 102 SITE 2 AC8 18 ARG B 107 THR B 163 GLN B 167 LYS B 207 SITE 3 AC8 18 THR B 208 ASP B 250 LYS B 264 IPE B 401 SITE 4 AC8 18 CA B 403 CA B 404 CA B 405 HOH B 504 SITE 5 AC8 18 HOH B 513 HOH B 545 SITE 1 AC9 6 ASP B 98 ASP B 102 P2H B 402 CA B 405 SITE 2 AC9 6 HOH B 503 HOH B 511 SITE 1 BC1 5 ASP B 250 P2H B 402 HOH B 505 HOH B 506 SITE 2 BC1 5 HOH B 514 SITE 1 BC2 7 ASP B 98 ASP B 102 P2H B 402 CA B 403 SITE 2 BC2 7 HOH B 502 HOH B 504 HOH B 512 SITE 1 BC3 5 GLY B 266 GLU B 270 HOH B 562 HOH B 615 SITE 2 BC3 5 HOH B 766 CRYST1 80.361 85.967 107.074 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 0.012444 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011632 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009339 0.00000 HETATM 1 N FME A 1 34.627 48.074 25.308 1.00 41.41 N HETATM 2 CN FME A 1 33.637 49.016 25.460 1.00 41.99 C HETATM 3 O1 FME A 1 32.548 48.664 25.891 1.00 43.96 O HETATM 4 CA FME A 1 35.577 48.487 24.274 1.00 40.56 C HETATM 5 CB FME A 1 36.996 48.204 24.767 1.00 41.43 C HETATM 6 CG FME A 1 37.391 49.204 25.853 1.00 43.61 C HETATM 7 SD FME A 1 38.652 48.540 26.895 1.00 47.58 S HETATM 8 CE FME A 1 39.156 49.808 28.016 1.00 46.89 C HETATM 9 C FME A 1 35.259 47.760 22.994 1.00 38.91 C HETATM 10 O FME A 1 34.603 46.713 23.031 1.00 38.68 O