HEADER HYDROLASE 26-FEB-14 4CRA TITLE CREATING NOVEL F1 INHIBITORS THROUGH FRAGMENT BASED LEAD GENERATION TITLE 2 AND STRUCTURE AIDED DRUG DESIGN COMPND MOL_ID: 1; COMPND 2 MOLECULE: COAGULATION FACTOR XI; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC DOMAIN, RESIDUES 388-625; COMPND 5 SYNONYM: FXI, PLASMA THROMBOPLASTIN ANTECEDENT, PTA, COAGULATION COMPND 6 FACTOR XIA LIGHT CHAIN; COMPND 7 EC: 3.4.21.27; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: KOMAGATAELLA PASTORIS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 4922 KEYWDS HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.SANDMARK,L.OSTER,O.FJELLSTROM,S.AKKAYA,H.G.BEISEL,P.O.ERIKSSON, AUTHOR 2 K.ERIXON,D.GUSTAFSSON,U.JURVA,D.KANG,D.KARIS,W.KNECHT,V.NERME, AUTHOR 3 I.NILSSON,T.OLSSON,A.REDZIC,R.ROTH,A.TIGERSTROM REVDAT 2 04-APR-18 4CRA 1 REMARK REVDAT 1 11-FEB-15 4CRA 0 JRNL AUTH O.FJELLSTROM,S.AKKAYA,H.BEISEL,P.ERIKSSON,K.ERIXON, JRNL AUTH 2 D.GUSTAFSSON,U.JURVA,D.KANG,D.KARIS,W.KNECHT,V.NERME, JRNL AUTH 3 I.NILSSON,T.OLSSON,A.REDZIC,R.ROTH,J.SANDMARK,A.TIGERSTROM, JRNL AUTH 4 L.OSTER JRNL TITL CREATING NOVEL ACTIVATED FACTOR XI INHIBITORS THROUGH JRNL TITL 2 FRAGMENT BASED LEAD GENERATION AND STRUCTURE AIDED DRUG JRNL TITL 3 DESIGN. JRNL REF PLOS ONE V. 10 13705 2015 JRNL REFN ESSN 1932-6203 JRNL PMID 25629509 JRNL DOI 10.1371/JOURNAL.PONE.0113705 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 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) : 85.66 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 3 NUMBER OF REFLECTIONS : 24736 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) : 0.186 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1307 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) : 1630 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 85.15 REMARK 3 BIN R VALUE (WORKING SET) : 0.3030 REMARK 3 BIN FREE R VALUE SET COUNT : 96 REMARK 3 BIN FREE R VALUE : 0.2960 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1880 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 65 REMARK 3 SOLVENT ATOMS : 215 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.71 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.128 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.116 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2011 ; 0.007 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1871 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2691 ; 1.129 ; 1.965 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4285 ; 4.118 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 220 ; 5.930 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 92 ;35.631 ;23.696 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 340 ;11.906 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;20.183 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 295 ; 0.073 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2115 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 446 ; 0.005 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 937 ; 1.104 ; 2.147 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 936 ; 1.103 ; 2.146 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1124 ; 1.854 ; 3.200 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1125 ; 1.854 ; 3.202 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1072 ; 1.914 ; 2.431 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1020 ; 1.386 ; 2.409 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1485 ; 2.341 ; 3.521 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2532 ; 4.641 ;18.777 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2386 ; 4.414 ;18.223 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 : 1.20 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. U VALUES REFINED INDIVIDUALLY REMARK 4 REMARK 4 4CRA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 26-FEB-14. REMARK 100 THE DEPOSITION ID IS D_1290059827. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-JUN-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 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+ REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN A200 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27223 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 23.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 4.600 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.3000 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) : 1.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.1 REMARK 200 DATA REDUNDANCY IN SHELL : 4.30 REMARK 200 R MERGE FOR SHELL (I) : 0.94000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.41 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.76 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2M AMMONIUM SULFATE, 0.1M TRIS-CL PH REMARK 280 8.5, 0.2M NACL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z,-X,-Y REMARK 290 7555 -Z,-X,Y REMARK 290 8555 -Z,X,-Y REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z,-X REMARK 290 11555 Y,-Z,-X REMARK 290 12555 -Y,-Z,X REMARK 290 13555 X+1/2,Y+1/2,Z+1/2 REMARK 290 14555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 15555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 16555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 17555 Z+1/2,X+1/2,Y+1/2 REMARK 290 18555 Z+1/2,-X+1/2,-Y+1/2 REMARK 290 19555 -Z+1/2,-X+1/2,Y+1/2 REMARK 290 20555 -Z+1/2,X+1/2,-Y+1/2 REMARK 290 21555 Y+1/2,Z+1/2,X+1/2 REMARK 290 22555 -Y+1/2,Z+1/2,-X+1/2 REMARK 290 23555 Y+1/2,-Z+1/2,-X+1/2 REMARK 290 24555 -Y+1/2,-Z+1/2,X+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 60.49500 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 60.49500 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 60.49500 REMARK 290 SMTRY1 14 -1.000000 0.000000 0.000000 60.49500 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 60.49500 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 60.49500 REMARK 290 SMTRY1 15 -1.000000 0.000000 0.000000 60.49500 REMARK 290 SMTRY2 15 0.000000 1.000000 0.000000 60.49500 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 60.49500 REMARK 290 SMTRY1 16 1.000000 0.000000 0.000000 60.49500 REMARK 290 SMTRY2 16 0.000000 -1.000000 0.000000 60.49500 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 60.49500 REMARK 290 SMTRY1 17 0.000000 0.000000 1.000000 60.49500 REMARK 290 SMTRY2 17 1.000000 0.000000 0.000000 60.49500 REMARK 290 SMTRY3 17 0.000000 1.000000 0.000000 60.49500 REMARK 290 SMTRY1 18 0.000000 0.000000 1.000000 60.49500 REMARK 290 SMTRY2 18 -1.000000 0.000000 0.000000 60.49500 REMARK 290 SMTRY3 18 0.000000 -1.000000 0.000000 60.49500 REMARK 290 SMTRY1 19 0.000000 0.000000 -1.000000 60.49500 REMARK 290 SMTRY2 19 -1.000000 0.000000 0.000000 60.49500 REMARK 290 SMTRY3 19 0.000000 1.000000 0.000000 60.49500 REMARK 290 SMTRY1 20 0.000000 0.000000 -1.000000 60.49500 REMARK 290 SMTRY2 20 1.000000 0.000000 0.000000 60.49500 REMARK 290 SMTRY3 20 0.000000 -1.000000 0.000000 60.49500 REMARK 290 SMTRY1 21 0.000000 1.000000 0.000000 60.49500 REMARK 290 SMTRY2 21 0.000000 0.000000 1.000000 60.49500 REMARK 290 SMTRY3 21 1.000000 0.000000 0.000000 60.49500 REMARK 290 SMTRY1 22 0.000000 -1.000000 0.000000 60.49500 REMARK 290 SMTRY2 22 0.000000 0.000000 1.000000 60.49500 REMARK 290 SMTRY3 22 -1.000000 0.000000 0.000000 60.49500 REMARK 290 SMTRY1 23 0.000000 1.000000 0.000000 60.49500 REMARK 290 SMTRY2 23 0.000000 0.000000 -1.000000 60.49500 REMARK 290 SMTRY3 23 -1.000000 0.000000 0.000000 60.49500 REMARK 290 SMTRY1 24 0.000000 -1.000000 0.000000 60.49500 REMARK 290 SMTRY2 24 0.000000 0.000000 -1.000000 60.49500 REMARK 290 SMTRY3 24 1.000000 0.000000 0.000000 60.49500 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31360 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -122.3 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT3 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT2 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 1.000000 0.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 S SO4 A1493 LIES ON A SPECIAL POSITION. REMARK 375 O1 SO4 A1493 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2093 LIES ON A SPECIAL POSITION. REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O2 SO4 A 1493 O4 SO4 A 1493 9555 0.00 REMARK 500 O3 SO4 A 1493 O4 SO4 A 1493 5555 0.00 REMARK 500 O2 SO4 A 1493 O3 SO4 A 1493 5555 0.00 REMARK 500 S SO4 A 1493 O3 SO4 A 1493 9555 1.47 REMARK 500 S SO4 A 1493 O2 SO4 A 1493 9555 1.47 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 ASP A 148 -144.02 -163.33 REMARK 500 SER A 214 -65.23 -120.85 REMARK 500 REMARK 500 REMARK: NULL REMARK 630 REMARK 630 MOLECULE TYPE: NULL REMARK 630 MOLECULE NAME: N-[(1S)-2-[(2-AMINO-5-QUINOLYL)METHYLAMINO]-1- REMARK 630 BENZYL-2-OXO-ETHYL]-4-HYDROXY-2-OXO-1H-QUINOLINE-6-CARBOXAMIDE REMARK 630 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 630 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 630 REMARK 630 M RES C SSSEQI REMARK 630 XJ8 A 1491 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: 7DM PHE RP8 REMARK 630 DETAILS: NULL REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "AB" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 6-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 7-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1489 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1490 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE XJ8 A 1491 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1492 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1493 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1494 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4CR5 RELATED DB: PDB REMARK 900 CREATING NOVEL F1 INHIBITORS THROUGH FRAGMENT BASED LEAD GENERATION REMARK 900 AND STRUCTURE AIDED DRUG DESIGN REMARK 900 RELATED ID: 4CR9 RELATED DB: PDB REMARK 900 CREATING NOVEL F1 INHIBITORS THROUGH FRAGMENT BASED LEAD GENERATION REMARK 900 AND STRUCTURE AIDED DRUG DESIGN REMARK 900 RELATED ID: 4CRB RELATED DB: PDB REMARK 900 CREATING NOVEL F1 INHIBITORS THROUGH FRAGMENT BASED LEAD GENERATION REMARK 900 AND STRUCTURE AIDED DRUG DESIGN REMARK 900 RELATED ID: 4CRC RELATED DB: PDB REMARK 900 CREATING NOVEL F1 INHIBITORS THROUGH FRAGMENT BASED LEAD GENERATION REMARK 900 AND STRUCTURE AIDED DRUG DESIGN REMARK 900 RELATED ID: 4CRD RELATED DB: PDB REMARK 900 CREATING NOVEL F1 INHIBITORS THROUGH FRAGMENT BASED LEAD GENERATION REMARK 900 AND STRUCTURE AIDED DRUG DESIGN REMARK 900 RELATED ID: 4CRE RELATED DB: PDB REMARK 900 CREATING NOVEL F1 INHIBITORS THROUGH FRAGMENT BASED LEAD GENERATION REMARK 900 AND STRUCTURE AIDED DRUG DESIGN REMARK 900 RELATED ID: 4CRF RELATED DB: PDB REMARK 900 CREATING NOVEL F1 INHIBITORS THROUGH FRAGMENT BASED LEAD GENERATION REMARK 900 AND STRUCTURE AIDED DRUG DESIGN REMARK 900 RELATED ID: 4CRG RELATED DB: PDB REMARK 900 CREATING NOVEL F1 INHIBITORS THROUGH FRAGMENT BASED LEAD GENERATION REMARK 900 AND STRUCTURE AIDED DRUG DESIGN DBREF 4CRA A 16 245 UNP P03951 FA11_HUMAN 388 625 SEQADV 4CRA ALA A 75 UNP P03951 SER 452 ENGINEERED MUTATION SEQADV 4CRA ALA A 78 UNP P03951 LYS 455 ENGINEERED MUTATION SEQADV 4CRA ALA A 115 UNP P03951 THR 493 ENGINEERED MUTATION SEQADV 4CRA SER A 123 UNP P03951 CYS 500 ENGINEERED MUTATION SEQRES 1 A 238 ILE VAL GLY GLY THR ALA SER VAL ARG GLY GLU TRP PRO SEQRES 2 A 238 TRP GLN VAL THR LEU HIS THR THR SER PRO THR GLN ARG SEQRES 3 A 238 HIS LEU CYS GLY GLY SER ILE ILE GLY ASN GLN TRP ILE SEQRES 4 A 238 LEU THR ALA ALA HIS CYS PHE TYR GLY VAL GLU SER PRO SEQRES 5 A 238 LYS ILE LEU ARG VAL TYR SER GLY ILE LEU ASN GLN ALA SEQRES 6 A 238 GLU ILE ALA GLU ASP THR SER PHE PHE GLY VAL GLN GLU SEQRES 7 A 238 ILE ILE ILE HIS ASP GLN TYR LYS MET ALA GLU SER GLY SEQRES 8 A 238 TYR ASP ILE ALA LEU LEU LYS LEU GLU THR THR VAL ASN SEQRES 9 A 238 TYR ALA ASP SER GLN ARG PRO ILE SER LEU PRO SER LYS SEQRES 10 A 238 GLY ASP ARG ASN VAL ILE TYR THR ASP CYS TRP VAL THR SEQRES 11 A 238 GLY TRP GLY TYR ARG LYS LEU ARG ASP LYS ILE GLN ASN SEQRES 12 A 238 THR LEU GLN LYS ALA LYS ILE PRO LEU VAL THR ASN GLU SEQRES 13 A 238 GLU CYS GLN LYS ARG TYR ARG GLY HIS LYS ILE THR HIS SEQRES 14 A 238 LYS MET ILE CYS ALA GLY TYR ARG GLU GLY GLY LYS ASP SEQRES 15 A 238 ALA CYS LYS GLY ASP SER GLY GLY PRO LEU SER CYS LYS SEQRES 16 A 238 HIS ASN GLU VAL TRP HIS LEU VAL GLY ILE THR SER TRP SEQRES 17 A 238 GLY GLU GLY CYS ALA GLN ARG GLU ARG PRO GLY VAL TYR SEQRES 18 A 238 THR ASN VAL VAL GLU TYR VAL ASP TRP ILE LEU GLU LYS SEQRES 19 A 238 THR GLN ALA VAL HET GOL A1489 6 HET GOL A1490 6 HET XJ8 A1491 38 HET SO4 A1492 5 HET SO4 A1493 5 HET SO4 A1494 5 HETNAM GOL GLYCEROL HETNAM XJ8 N-[(1S)-2-[(2-AMINO-5-QUINOLYL)METHYLAMINO]-1-BENZYL-2- HETNAM 2 XJ8 OXO-ETHYL]-4-HYDROXY-2-OXO-1H-QUINOLINE-6-CARBOXAMIDE HETNAM SO4 SULFATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 GOL 2(C3 H8 O3) FORMUL 4 XJ8 C29 H25 N5 O4 FORMUL 5 SO4 3(O4 S 2-) FORMUL 8 HOH *215(H2 O) HELIX 1 1 ALA A 55 TYR A 59A 5 6 HELIX 2 2 SER A 61 LYS A 63 5 3 HELIX 3 3 GLN A 74 ILE A 77 5 4 HELIX 4 4 MET A 96 GLY A 100 5 5 HELIX 5 5 SER A 126 ARG A 130 5 5 HELIX 6 6 THR A 164 TYR A 172 1 9 HELIX 7 7 TYR A 234 GLN A 243 1 10 SHEET 1 AA 8 THR A 20 ALA A 21 0 SHEET 2 AA 8 GLN A 156 LYS A 159 -1 O LYS A 157 N THR A 20 SHEET 3 AA 8 CYS A 136 GLY A 140 -1 O VAL A 138 N ALA A 158 SHEET 4 AA 8 PRO A 198 HIS A 202A-1 O PRO A 198 N THR A 139 SHEET 5 AA 8 VAL A 202D TRP A 215 -1 O VAL A 202D N HIS A 202A SHEET 6 AA 8 GLY A 226 ASN A 230 -1 O VAL A 227 N TRP A 215 SHEET 7 AA 8 MET A 180 ALA A 183 -1 O ILE A 181 N TYR A 228 SHEET 8 AA 8 LEU A 162 VAL A 163 -1 O VAL A 163 N CYS A 182 SHEET 1 AB 7 GLN A 30 THR A 35 0 SHEET 2 AB 7 ARG A 37D GLY A 46 -1 O ARG A 37D N THR A 35 SHEET 3 AB 7 TRP A 51 THR A 54 -1 O TRP A 51 N ILE A 45 SHEET 4 AB 7 ALA A 104 LEU A 108 -1 O ALA A 104 N THR A 54 SHEET 5 AB 7 PHE A 83 ILE A 90 -1 N GLN A 86 O LYS A 107 SHEET 6 AB 7 LEU A 65 TYR A 68 -1 O LEU A 65 N VAL A 85 SHEET 7 AB 7 GLN A 30 THR A 35 -1 O THR A 32 N TYR A 68 SSBOND 1 CYS A 40 CYS A 58 1555 1555 2.03 SSBOND 2 CYS A 136 CYS A 201 1555 1555 2.02 SSBOND 3 CYS A 168 CYS A 182 1555 1555 2.04 SSBOND 4 CYS A 191 CYS A 219 1555 1555 2.03 CISPEP 1 SER A 37 PRO A 37A 0 -1.96 SITE 1 AC1 8 ALA A 115 SER A 117 SER A 214 TRP A 215 SITE 2 AC1 8 XJ8 A1491 HOH A2118 HOH A2192 HOH A2210 SITE 1 AC2 7 VAL A 23 ARG A 24 GLY A 25 TRP A 27 SITE 2 AC2 7 ILE A 71 SER A 117 LEU A 155 SITE 1 AC3 22 HIS A 38 LEU A 39 HIS A 57 TYR A 114 SITE 2 AC3 22 TYR A 143 ILE A 151 ASP A 189 ALA A 190 SITE 3 AC3 22 LYS A 192 GLY A 193 SER A 195 TRP A 215 SITE 4 AC3 22 GLY A 216 GLY A 218 CYS A 219 GLY A 226 SITE 5 AC3 22 GOL A1489 HOH A2039 HOH A2041 HOH A2056 SITE 6 AC3 22 HOH A2212 HOH A2213 SITE 1 AC4 6 THR A 20 ALA A 21 GLN A 48 GLN A 86 SITE 2 AC4 6 HOH A2006 HOH A2214 SITE 1 AC5 2 LYS A 127 ARG A 130 SITE 1 AC6 5 LYS A 202 TRP A 203 HOH A2015 HOH A2121 SITE 2 AC6 5 HOH A2215 CRYST1 120.990 120.990 120.990 90.00 90.00 90.00 I 2 3 24 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 0.008265 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008265 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008265 0.00000