HEADER HYDROLASE/HYDROLASE INHIBITOR 18-DEC-07 3BPM TITLE CRYSTAL STRUCTURE OF FALCIPAIN-3 WITH ITS INHIBITOR, LEUPEPTIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYSTEINE PROTEASE FALCIPAIN-3; COMPND 3 CHAIN: A, B; COMPND 4 EC: 3.4.22.-; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: LEUPEPTIN; COMPND 7 CHAIN: D, C; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM; SOURCE 3 ORGANISM_TAXID: 5833; SOURCE 4 MOL_ID: 2; SOURCE 5 SYNTHETIC: YES; SOURCE 6 ORGANISM_SCIENTIFIC: STREPTOMYCES ROSEUS; SOURCE 7 ORGANISM_TAXID: 66430 KEYWDS FALCIPAIN, MALARIA, CYSTEINE PROTEASE, HYDROLASE-HYDROLASE INHIBITOR KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR I.D.KERR,J.H.LEE,L.S.BRINEN REVDAT 5 30-AUG-23 3BPM 1 REMARK LINK REVDAT 4 05-DEC-12 3BPM 1 DBREF HEADER KEYWDS SOURCE REVDAT 4 2 1 LINK REMARK SITE REVDAT 3 13-JUL-11 3BPM 1 VERSN REVDAT 2 17-MAR-09 3BPM 1 JRNL REVDAT 1 30-DEC-08 3BPM 0 JRNL AUTH I.D.KERR,J.H.LEE,K.C.PANDEY,A.HARRISON,M.SAJID, JRNL AUTH 2 P.J.ROSENTHAL,L.S.BRINEN JRNL TITL STRUCTURES OF FALCIPAIN-2 AND FALCIPAIN-3 BOUND TO SMALL JRNL TITL 2 MOLECULE INHIBITORS: IMPLICATIONS FOR SUBSTRATE SPECIFICITY. JRNL REF J.MED.CHEM. V. 52 852 2009 JRNL REFN ISSN 0022-2623 JRNL PMID 19128015 JRNL DOI 10.1021/JM8013663 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 92.85 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 19568 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) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1056 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1419 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2460 REMARK 3 BIN FREE R VALUE SET COUNT : 73 REMARK 3 BIN FREE R VALUE : 0.3280 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3815 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 25 REMARK 3 SOLVENT ATOMS : 76 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.16000 REMARK 3 B22 (A**2) : -0.16000 REMARK 3 B33 (A**2) : 0.23000 REMARK 3 B12 (A**2) : -0.08000 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): 0.483 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.255 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.187 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.266 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.938 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3936 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2659 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5327 ; 1.549 ; 1.971 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6377 ; 0.910 ; 3.009 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 472 ; 6.715 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 187 ;36.537 ;24.545 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 623 ;16.086 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;15.962 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 542 ; 0.086 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4405 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 838 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 819 ; 0.211 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2780 ; 0.202 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1957 ; 0.195 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2051 ; 0.095 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 151 ; 0.153 ; 0.200 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): 9 ; 0.089 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 42 ; 0.241 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 4 ; 0.172 ; 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): 2997 ; 0.693 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 984 ; 0.131 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3764 ; 0.937 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1963 ; 1.536 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1563 ; 2.259 ; 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 : 2 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 : A 8 A 250 REMARK 3 ORIGIN FOR THE GROUP (A): -0.9570 25.2610 -23.0100 REMARK 3 T TENSOR REMARK 3 T11: -0.1028 T22: -0.1766 REMARK 3 T33: 0.0891 T12: -0.0180 REMARK 3 T13: -0.0046 T23: -0.0034 REMARK 3 L TENSOR REMARK 3 L11: 1.4862 L22: 1.8042 REMARK 3 L33: 0.9386 L12: -0.2604 REMARK 3 L13: -0.1272 L23: 0.2790 REMARK 3 S TENSOR REMARK 3 S11: 0.0223 S12: -0.0228 S13: 0.0317 REMARK 3 S21: 0.1395 S22: -0.0488 S23: -0.0313 REMARK 3 S31: 0.0332 S32: -0.0719 S33: 0.0265 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 : B 9 B 249 REMARK 3 ORIGIN FOR THE GROUP (A): -11.5210 26.5520 -48.4110 REMARK 3 T TENSOR REMARK 3 T11: -0.0888 T22: -0.0915 REMARK 3 T33: -0.0323 T12: 0.0554 REMARK 3 T13: -0.0475 T23: 0.0369 REMARK 3 L TENSOR REMARK 3 L11: 2.9885 L22: 2.0114 REMARK 3 L33: 2.4175 L12: 0.1560 REMARK 3 L13: -0.2995 L23: -0.2322 REMARK 3 S TENSOR REMARK 3 S11: -0.0539 S12: 0.4993 S13: 0.1369 REMARK 3 S21: -0.3460 S22: 0.0318 S23: 0.1416 REMARK 3 S31: 0.2255 S32: -0.0622 S33: 0.0221 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK 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 3BPM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-DEC-07. REMARK 100 THE DEPOSITION ID IS D_1000045809. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-JAN-07 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : SIDE-SCATTERING CUBEROOT I-BEAM REMARK 200 BENT SINGLE CRYSTAL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20625 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 92.850 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 15.90 REMARK 200 R MERGE (I) : 0.09100 REMARK 200 R SYM (I) : 0.02300 REMARK 200 FOR THE DATA SET : 27.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 16.30 REMARK 200 R MERGE FOR SHELL (I) : 0.50700 REMARK 200 R SYM FOR SHELL (I) : 0.12400 REMARK 200 FOR SHELL : 7.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 3BPF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.015 M MAGNESIUM ACETATE, 50 MM REMARK 280 SODIUM CACODYLATE, 1.3 M AMMONIUM SULFATE, PH 6.5, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 77.28500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 44.62052 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 43.00367 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 77.28500 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 44.62052 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 43.00367 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 77.28500 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 44.62052 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 43.00367 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 77.28500 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 44.62052 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 43.00367 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 77.28500 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 44.62052 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 43.00367 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 77.28500 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 44.62052 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 43.00367 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 89.24103 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 86.00733 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 89.24103 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 86.00733 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 89.24103 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 86.00733 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 89.24103 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 86.00733 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 89.24103 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 86.00733 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 89.24103 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 86.00733 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 APPLY THE FOLLOWING TO CHAINS: A, D 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C 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 400 REMARK 400 COMPOUND REMARK 400 REMARK 400 THE LEUPEPTIN IS OLIGOPEPTIDE, A MEMBER OF ENZYME INHIBITOR CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: LEUPEPTIN REMARK 400 CHAIN: D, C REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 DESCRIPTION: NULL 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 TYR B 8 REMARK 465 ILE B 195 REMARK 465 TYR B 196 REMARK 465 ASN B 197 REMARK 465 GLU B 198 REMARK 465 ASP B 199 REMARK 465 THR B 200 REMARK 465 GLY B 201 REMARK 465 ARG B 202 REMARK 465 MET B 203 REMARK 465 GLU B 250 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 TYR A 31 119.47 -165.40 REMARK 500 ALA A 46 -139.88 50.07 REMARK 500 SER A 117 -122.87 54.25 REMARK 500 ASN A 124 88.96 -159.08 REMARK 500 ASN A 129 -82.35 -85.06 REMARK 500 ARG A 169 32.03 -142.31 REMARK 500 ASN A 182 -2.74 -151.00 REMARK 500 TYR B 31 115.59 -170.11 REMARK 500 HIS B 36 41.47 -144.40 REMARK 500 ALA B 46 -152.14 61.57 REMARK 500 TYR B 113 72.42 -160.13 REMARK 500 SER B 117 -111.35 54.43 REMARK 500 LEU B 119 109.48 -59.87 REMARK 500 GLU B 121 119.39 -164.95 REMARK 500 ASN B 129 -93.50 -78.35 REMARK 500 SER B 136 -167.70 -175.24 REMARK 500 ARG B 169 21.83 -140.60 REMARK 500 ASN B 182 9.16 -150.17 REMARK 500 THR B 242 -71.76 -27.71 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 SO4 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN C OF LEUPEPTIN REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN D OF LEUPEPTIN REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3BPF RELATED DB: PDB REMARK 900 THE FALCIPAIN-2 (CYSTEINE PROTEASE) COMPLEXED WITH E64 REMARK 900 RELATED ID: 1YVB RELATED DB: PDB REMARK 900 THE FALCIPAIN-2 (CYSTEINE PROTEASE) COMPLEXED WITH CYSTATIN REMARK 900 RELATED ID: 2GHU RELATED DB: PDB REMARK 900 THE FALCIPAIN-2 (CYSTEINE PROTEASE) COMPLEXED WITH IDOACETAMIDE REMARK 900 RELATED ID: 1AIM RELATED DB: PDB REMARK 900 CRUZATIN (CYSTEINE PROTEASE) INHIBITED BY BENZOYL-TYROSINE-ALANINE- REMARK 900 FLUOROMETHYLKETONE DBREF 3BPM A 8 250 UNP Q9NBA7 Q9NBA7_PLAFA 246 488 DBREF 3BPM B 8 250 UNP Q9NBA7 Q9NBA7_PLAFA 246 488 DBREF 3BPM C 1 4 NOR NOR00487 NOR00487 1 3 DBREF 3BPM D 1 4 NOR NOR00487 NOR00487 1 3 SEQRES 1 A 243 TYR GLU ALA ASN TYR GLU ASP VAL ILE LYS LYS TYR LYS SEQRES 2 A 243 PRO ALA ASP ALA LYS LEU ASP ARG ILE ALA TYR ASP TRP SEQRES 3 A 243 ARG LEU HIS GLY GLY VAL THR PRO VAL LYS ASP GLN ALA SEQRES 4 A 243 LEU CYS GLY SER CYS TRP ALA PHE SER SER VAL GLY SER SEQRES 5 A 243 VAL GLU SER GLN TYR ALA ILE ARG LYS LYS ALA LEU PHE SEQRES 6 A 243 LEU PHE SER GLU GLN GLU LEU VAL ASP CYS SER VAL LYS SEQRES 7 A 243 ASN ASN GLY CYS TYR GLY GLY TYR ILE THR ASN ALA PHE SEQRES 8 A 243 ASP ASP MET ILE ASP LEU GLY GLY LEU CYS SER GLN ASP SEQRES 9 A 243 ASP TYR PRO TYR VAL SER ASN LEU PRO GLU THR CYS ASN SEQRES 10 A 243 LEU LYS ARG CYS ASN GLU ARG TYR THR ILE LYS SER TYR SEQRES 11 A 243 VAL SER ILE PRO ASP ASP LYS PHE LYS GLU ALA LEU ARG SEQRES 12 A 243 TYR LEU GLY PRO ILE SER ILE SER ILE ALA ALA SER ASP SEQRES 13 A 243 ASP PHE ALA PHE TYR ARG GLY GLY PHE TYR ASP GLY GLU SEQRES 14 A 243 CYS GLY ALA ALA PRO ASN HIS ALA VAL ILE LEU VAL GLY SEQRES 15 A 243 TYR GLY MET LYS ASP ILE TYR ASN GLU ASP THR GLY ARG SEQRES 16 A 243 MET GLU LYS PHE TYR TYR TYR ILE ILE LYS ASN SER TRP SEQRES 17 A 243 GLY SER ASP TRP GLY GLU GLY GLY TYR ILE ASN LEU GLU SEQRES 18 A 243 THR ASP GLU ASN GLY TYR LYS LYS THR CYS SER ILE GLY SEQRES 19 A 243 THR GLU ALA TYR VAL PRO LEU LEU GLU SEQRES 1 B 243 TYR GLU ALA ASN TYR GLU ASP VAL ILE LYS LYS TYR LYS SEQRES 2 B 243 PRO ALA ASP ALA LYS LEU ASP ARG ILE ALA TYR ASP TRP SEQRES 3 B 243 ARG LEU HIS GLY GLY VAL THR PRO VAL LYS ASP GLN ALA SEQRES 4 B 243 LEU CYS GLY SER CYS TRP ALA PHE SER SER VAL GLY SER SEQRES 5 B 243 VAL GLU SER GLN TYR ALA ILE ARG LYS LYS ALA LEU PHE SEQRES 6 B 243 LEU PHE SER GLU GLN GLU LEU VAL ASP CYS SER VAL LYS SEQRES 7 B 243 ASN ASN GLY CYS TYR GLY GLY TYR ILE THR ASN ALA PHE SEQRES 8 B 243 ASP ASP MET ILE ASP LEU GLY GLY LEU CYS SER GLN ASP SEQRES 9 B 243 ASP TYR PRO TYR VAL SER ASN LEU PRO GLU THR CYS ASN SEQRES 10 B 243 LEU LYS ARG CYS ASN GLU ARG TYR THR ILE LYS SER TYR SEQRES 11 B 243 VAL SER ILE PRO ASP ASP LYS PHE LYS GLU ALA LEU ARG SEQRES 12 B 243 TYR LEU GLY PRO ILE SER ILE SER ILE ALA ALA SER ASP SEQRES 13 B 243 ASP PHE ALA PHE TYR ARG GLY GLY PHE TYR ASP GLY GLU SEQRES 14 B 243 CYS GLY ALA ALA PRO ASN HIS ALA VAL ILE LEU VAL GLY SEQRES 15 B 243 TYR GLY MET LYS ASP ILE TYR ASN GLU ASP THR GLY ARG SEQRES 16 B 243 MET GLU LYS PHE TYR TYR TYR ILE ILE LYS ASN SER TRP SEQRES 17 B 243 GLY SER ASP TRP GLY GLU GLY GLY TYR ILE ASN LEU GLU SEQRES 18 B 243 THR ASP GLU ASN GLY TYR LYS LYS THR CYS SER ILE GLY SEQRES 19 B 243 THR GLU ALA TYR VAL PRO LEU LEU GLU SEQRES 1 D 4 ACE LEU LEU AR7 SEQRES 1 C 4 ACE LEU LEU AR7 MODRES 3BPM AR7 D 4 ARG MODRES 3BPM AR7 C 4 ARG HET ACE D 1 3 HET AR7 D 4 11 HET ACE C 1 3 HET AR7 C 4 11 HET SO4 A 301 5 HET SO4 A 302 5 HET SO4 A 303 5 HET SO4 B 301 5 HET SO4 B 302 5 HETNAM ACE ACETYL GROUP HETNAM AR7 AMINO{[(4S)-4-AMINO-5,5- HETNAM 2 AR7 DIHYDROXYPENTYL]AMINO}METHANIMINIUM HETNAM SO4 SULFATE ION FORMUL 3 ACE 2(C2 H4 O) FORMUL 3 AR7 2(C6 H17 N4 O2 1+) FORMUL 5 SO4 5(O4 S 2-) FORMUL 10 HOH *76(H2 O) HELIX 1 1 ASN A 11 LYS A 20 1 10 HELIX 2 2 ARG A 34 HIS A 36 5 3 HELIX 3 3 SER A 50 LYS A 69 1 20 HELIX 4 4 SER A 75 SER A 83 1 9 HELIX 5 5 ASN A 87 GLY A 91 5 5 HELIX 6 6 TYR A 93 LEU A 104 1 12 HELIX 7 7 ASN A 124 CYS A 128 5 5 HELIX 8 8 LYS A 144 LEU A 152 1 9 HELIX 9 9 SER A 162 TYR A 168 5 7 HELIX 10 10 LYS A 236 ILE A 240 5 5 HELIX 11 11 ASN B 11 LYS B 20 1 10 HELIX 12 12 ARG B 34 HIS B 36 5 3 HELIX 13 13 SER B 50 LYS B 69 1 20 HELIX 14 14 SER B 75 SER B 83 1 9 HELIX 15 15 ASN B 87 GLY B 91 5 5 HELIX 16 16 TYR B 93 LEU B 104 1 12 HELIX 17 17 ASN B 124 CYS B 128 5 5 HELIX 18 18 PRO B 141 ASP B 143 5 3 HELIX 19 19 LYS B 144 LEU B 152 1 9 HELIX 20 20 SER B 162 TYR B 168 1 7 HELIX 21 21 LYS B 236 ILE B 240 5 5 SHEET 1 A 6 GLU A 9 ALA A 10 0 SHEET 2 A 6 SER A 136 SER A 139 1 O TYR A 137 N ALA A 10 SHEET 3 A 6 ALA A 244 LEU A 248 -1 O LEU A 248 N SER A 136 SHEET 4 A 6 ILE A 155 ILE A 159 -1 N SER A 156 O TYR A 245 SHEET 5 A 6 HIS A 183 TYR A 196 -1 O LEU A 187 N ILE A 155 SHEET 6 A 6 TYR A 31 ASP A 32 -1 N TYR A 31 O TYR A 190 SHEET 1 B 7 GLU A 9 ALA A 10 0 SHEET 2 B 7 SER A 136 SER A 139 1 O TYR A 137 N ALA A 10 SHEET 3 B 7 ALA A 244 LEU A 248 -1 O LEU A 248 N SER A 136 SHEET 4 B 7 ILE A 155 ILE A 159 -1 N SER A 156 O TYR A 245 SHEET 5 B 7 HIS A 183 TYR A 196 -1 O LEU A 187 N ILE A 155 SHEET 6 B 7 MET A 203 LYS A 212 -1 O TYR A 208 N GLY A 191 SHEET 7 B 7 TYR A 224 THR A 229 -1 O LEU A 227 N TYR A 209 SHEET 1 C 2 LEU A 107 CYS A 108 0 SHEET 2 C 2 ARG A 131 TYR A 132 -1 O TYR A 132 N LEU A 107 SHEET 1 D 5 TYR B 31 ASP B 32 0 SHEET 2 D 5 HIS B 183 LYS B 193 -1 O TYR B 190 N TYR B 31 SHEET 3 D 5 ILE B 155 ILE B 159 -1 N ILE B 159 O HIS B 183 SHEET 4 D 5 ALA B 244 LEU B 248 -1 O TYR B 245 N SER B 156 SHEET 5 D 5 SER B 136 SER B 139 -1 N SER B 136 O LEU B 248 SHEET 1 E 4 TYR B 31 ASP B 32 0 SHEET 2 E 4 HIS B 183 LYS B 193 -1 O TYR B 190 N TYR B 31 SHEET 3 E 4 PHE B 206 LYS B 212 -1 O LYS B 212 N ILE B 186 SHEET 4 E 4 TYR B 224 THR B 229 -1 O LEU B 227 N TYR B 209 SHEET 1 F 2 LEU B 107 CYS B 108 0 SHEET 2 F 2 ARG B 131 TYR B 132 -1 O TYR B 132 N LEU B 107 SSBOND 1 CYS A 48 CYS A 89 1555 1555 2.10 SSBOND 2 CYS A 82 CYS A 123 1555 1555 2.07 SSBOND 3 CYS A 108 CYS A 128 1555 1555 2.02 SSBOND 4 CYS A 177 CYS A 238 1555 1555 2.19 SSBOND 5 CYS B 48 CYS B 89 1555 1555 2.03 SSBOND 6 CYS B 82 CYS B 123 1555 1555 2.02 SSBOND 7 CYS B 108 CYS B 128 1555 1555 2.06 SSBOND 8 CYS B 177 CYS B 238 1555 1555 2.10 LINK SG CYS A 51 C AR7 D 4 1555 1555 1.80 LINK SG CYS B 51 C AR7 C 4 1555 1555 1.83 LINK C ACE D 1 N LEU D 2 1555 1555 1.33 LINK C LEU D 3 N AR7 D 4 1555 1555 1.33 LINK C ACE C 1 N LEU C 2 1555 1555 1.36 LINK C LEU C 3 N AR7 C 4 1555 1555 1.32 SITE 1 AC1 5 LYS A 20 ALA A 24 LYS A 25 LEU A 26 SITE 2 AC1 5 ARG A 28 SITE 1 AC2 4 ALA A 24 LYS A 25 ARG A 150 HOH A 419 SITE 1 AC3 2 ARG A 202 ARG B 28 SITE 1 AC4 5 ARG A 202 LYS B 20 LYS B 25 LEU B 26 SITE 2 AC4 5 ARG B 28 SITE 1 AC5 1 ARG B 150 SITE 1 AC6 11 GLN B 45 GLY B 49 SER B 50 CYS B 51 SITE 2 AC6 11 TRP B 52 TYR B 90 GLY B 91 GLY B 92 SITE 3 AC6 11 TYR B 93 ASN B 182 HIS B 183 SITE 1 AC7 18 GLN A 45 GLY A 49 SER A 50 CYS A 51 SITE 2 AC7 18 TRP A 52 TYR A 90 GLY A 91 GLY A 92 SITE 3 AC7 18 TYR A 93 ASP A 164 GLU A 176 ASN A 182 SITE 4 AC7 18 HIS A 183 HOH A 405 HOH A 408 HOH D 101 SITE 5 AC7 18 HOH D 102 HOH D 103 CRYST1 154.570 154.570 129.011 90.00 90.00 120.00 H 3 2 36 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 0.006470 0.003735 0.000000 0.00000 SCALE2 0.000000 0.007470 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007751 0.00000