HEADER DNA 15-JUL-16 5LIT TITLE STRUCTURE OF THE DNA DUPLEX D(AAATTT)2 WITH THE POTENTIAL TITLE 2 ANTIPARASITIC DRUG 6XV AT 1.25 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*AP*AP*AP*TP*TP*T)-3'); COMPND 3 CHAIN: D, C, A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630 KEYWDS ALL AT DNA, ANTIPARASITIC DRUG, MINOR GROOVE BINDING DRUG, DNA EXPDTA X-RAY DIFFRACTION AUTHOR C.R.MILLAN,C.DARDONVILLE,H.P.DE KONING,N.SAPERAS,J.LOURDES CAMPOS REVDAT 5 06-SEP-17 5LIT 1 JRNL REVDAT 4 05-JUL-17 5LIT 1 JRNL REVDAT 3 28-JUN-17 5LIT 1 TITLE AUTHOR JRNL REVDAT 2 21-JUN-17 5LIT 1 JRNL REVDAT 1 14-JUN-17 5LIT 0 JRNL AUTH C.R.MILLAN,F.J.ACOSTA-REYES,L.LAGARTERA,G.U.EBILOMA, JRNL AUTH 2 L.LEMGRUBER,J.J.NUE MARTINEZ,N.SAPERAS,C.DARDONVILLE, JRNL AUTH 3 H.P.DE KONING,J.L.CAMPOS JRNL TITL FUNCTIONAL AND STRUCTURAL ANALYSIS OF AT-SPECIFIC MINOR JRNL TITL 2 GROOVE BINDERS THAT DISRUPT DNA-PROTEIN INTERACTIONS AND JRNL TITL 3 CAUSE DISINTEGRATION OF THE TRYPANOSOMA BRUCEI KINETOPLAST. JRNL REF NUCLEIC ACIDS RES. V. 45 8378 2017 JRNL REFN ESSN 1362-4962 JRNL PMID 28637278 JRNL DOI 10.1093/NAR/GKX521 REMARK 2 REMARK 2 RESOLUTION. 1.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 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) : 1.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.14 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 92.5 REMARK 3 NUMBER OF REFLECTIONS : 15741 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) : 0.123 REMARK 3 R VALUE (WORKING SET) : 0.121 REMARK 3 FREE R VALUE : 0.167 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 853 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) : 1.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.28 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1122 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.67 REMARK 3 BIN R VALUE (WORKING SET) : 0.1410 REMARK 3 BIN FREE R VALUE SET COUNT : 63 REMARK 3 BIN FREE R VALUE : 0.2000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 480 REMARK 3 HETEROGEN ATOMS : 85 REMARK 3 SOLVENT ATOMS : 165 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 5.52 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 11.88 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.28000 REMARK 3 B22 (A**2) : -0.04000 REMARK 3 B33 (A**2) : -0.29000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.45000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.044 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.047 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.026 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.280 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.979 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.964 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 626 ; 0.022 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 337 ; 0.006 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 940 ; 2.518 ; 1.524 REMARK 3 BOND ANGLES OTHERS (DEGREES): 784 ; 1.894 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 72 ; 0.122 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 373 ; 0.038 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 127 ; 0.003 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 626 ; 1.457 ; 1.019 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 627 ; 1.456 ; 1.019 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 941 ; 1.704 ; 1.540 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 1032 ; 2.382 ;11.559 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 911 ; 1.824 ;10.395 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 962 ;13.640 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 21 ;20.239 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 1046 ; 6.768 ; 5.000 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 REMARK 4 REMARK 4 5LIT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-JUL-16. REMARK 100 THE DEPOSITION ID IS D_1200000803. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-JUN-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALBA REMARK 200 BEAMLINE : XALOC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9787 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM 7.2.1 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.25 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16801 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.247 REMARK 200 RESOLUTION RANGE LOW (A) : 36.140 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.9 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : 0.06900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.27 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.8 REMARK 200 DATA REDUNDANCY IN SHELL : 5.50 REMARK 200 R MERGE FOR SHELL (I) : 0.22700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: AAATTT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10 MM MAGNESIUM ACETATE, PH 6.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277.1K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 1 2 1 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+1/2,Y+1/2,Z+1/2 REMARK 290 4555 -X+1/2,Y+1/2,-Z+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 8.84711 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 20.12500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 36.13724 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 8.84711 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 20.12500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 36.13724 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: 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 APPLY THE FOLLOWING TO CHAINS: D REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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: 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 350 APPLY THE FOLLOWING TO CHAINS: C REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 26.96578 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -72.27448 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC 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 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 MG MG C 102 LIES ON A SPECIAL POSITION. REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 DT D 6 C4 DT D 6 C5 0.057 REMARK 500 DT B 6 C3' DT B 6 C2' -0.049 REMARK 500 DT B 6 N3 DT B 6 C4 -0.052 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 DA C 2 O5' - P - OP2 ANGL. DEV. = -14.6 DEGREES REMARK 500 DA C 2 O5' - C5' - C4' ANGL. DEV. = -5.5 DEGREES REMARK 500 DA A 2 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 DT B 4 O4' - C4' - C3' ANGL. DEV. = 3.9 DEGREES REMARK 500 DT B 6 O4' - C4' - C3' ANGL. DEV. = -2.4 DEGREES REMARK 500 DT B 6 N3 - C4 - C5 ANGL. DEV. = 4.6 DEGREES REMARK 500 DT B 6 C5 - C4 - O4 ANGL. DEV. = -5.2 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 DT C 5 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH D 247 DISTANCE = 6.28 ANGSTROMS REMARK 525 HOH D 248 DISTANCE = 6.33 ANGSTROMS REMARK 525 HOH C 225 DISTANCE = 6.92 ANGSTROMS REMARK 525 HOH A 240 DISTANCE = 6.40 ANGSTROMS REMARK 525 HOH A 241 DISTANCE = 6.60 ANGSTROMS REMARK 525 HOH A 242 DISTANCE = 6.74 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D 102 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH D 207 O REMARK 620 2 HOH D 222 O 98.4 REMARK 620 3 HOH D 228 O 85.9 82.5 REMARK 620 4 HOH D 231 O 83.7 89.6 165.9 REMARK 620 5 HOH D 246 O 100.4 159.2 107.4 84.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 102 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH C 206 O REMARK 620 2 HOH C 212 O 91.3 REMARK 620 3 HOH C 220 O 91.4 89.9 REMARK 620 4 HOH C 206 O 89.2 179.4 90.5 REMARK 620 5 HOH C 212 O 179.5 88.3 88.4 91.3 REMARK 620 6 HOH C 220 O 90.4 88.3 177.5 91.3 89.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 101 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH C 215 O REMARK 620 2 HOH B 210 O 87.6 REMARK 620 3 HOH B 233 O 89.3 84.6 REMARK 620 4 DT A 4 OP1 56.6 34.2 72.4 REMARK 620 5 HOH A 219 O 91.7 98.1 177.2 110.3 REMARK 620 6 HOH A 223 O 90.5 173.8 89.5 141.5 87.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 103 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 208 O REMARK 620 2 HOH B 235 O 87.0 REMARK 620 3 HOH B 247 O 88.4 92.6 REMARK 620 4 HOH B 209 O 90.6 90.8 176.4 REMARK 620 5 HOH B 246 O 90.0 176.5 89.1 87.5 REMARK 620 6 HOH B 249 O 179.2 92.8 90.9 90.1 90.2 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 6XV D 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG D 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6XV C 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG C 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6XV B 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 103 DBREF 5LIT D 1 6 PDB 5LIT 5LIT 1 6 DBREF 5LIT C 1 6 PDB 5LIT 5LIT 1 6 DBREF 5LIT A 1 6 PDB 5LIT 5LIT 1 6 DBREF 5LIT B 1 6 PDB 5LIT 5LIT 1 6 SEQRES 1 D 6 DA DA DA DT DT DT SEQRES 1 C 6 DA DA DA DT DT DT SEQRES 1 A 6 DA DA DA DT DT DT SEQRES 1 B 6 DA DA DA DT DT DT HET 6XV D 101 27 HET MG D 102 1 HET 6XV C 101 27 HET MG C 102 1 HET MG B 101 1 HET 6XV B 102 27 HET MG B 103 1 HETNAM 6XV 4-((4,5-DIHYDRO-1H-IMIDAZOL-2-YL)AMINO)-N-(4-((4,5- HETNAM 2 6XV DIHYDRO-1H-IMIDAZOL-2-YL)AMINO)PHENYL)BENZAMIDE HETNAM 3 6XV DIHYDROCHLORIDE HETNAM MG MAGNESIUM ION FORMUL 5 6XV 3(C19 H21 N7 O) FORMUL 6 MG 4(MG 2+) FORMUL 12 HOH *165(H2 O) LINK MG MG D 102 O HOH D 207 1555 1555 2.06 LINK MG MG D 102 O HOH D 222 1555 1555 2.17 LINK MG MG D 102 O HOH D 228 1555 1555 2.15 LINK MG MG D 102 O HOH D 231 1555 1555 1.84 LINK MG MG D 102 O HOH D 246 1555 1555 1.98 LINK MG MG C 102 O HOH C 206 1555 1555 2.04 LINK MG MG C 102 O HOH C 212 1555 1555 2.09 LINK MG MG C 102 O HOH C 220 1555 1555 2.04 LINK MG MG B 101 O HOH C 215 1555 1555 2.02 LINK MG MG B 101 O HOH B 210 1555 1555 2.08 LINK MG MG B 101 O HOH B 233 1555 1555 2.08 LINK MG MG B 103 O HOH B 208 1555 1555 2.05 LINK MG MG B 103 O HOH B 235 1555 1555 2.10 LINK MG MG B 103 O HOH B 247 1555 1555 2.03 LINK MG MG B 103 O HOH B 209 1555 1555 2.08 LINK MG MG B 103 O HOH B 246 1555 1555 2.12 LINK MG MG B 103 O HOH B 249 1555 1555 2.09 LINK OP1 DT A 4 MG MG B 101 1555 1455 2.06 LINK MG MG C 102 O HOH C 206 1555 2754 2.04 LINK MG MG C 102 O HOH C 212 1555 2754 2.09 LINK MG MG C 102 O HOH C 220 1555 2754 2.04 LINK MG MG B 101 O HOH A 219 1555 1655 1.97 LINK MG MG B 101 O HOH A 223 1555 1655 2.10 SITE 1 AC1 7 DA D 2 DA D 3 DT D 4 DT D 5 SITE 2 AC1 7 DT D 6 HOH D 206 HOH D 225 SITE 1 AC2 5 HOH D 207 HOH D 222 HOH D 228 HOH D 231 SITE 2 AC2 5 HOH D 246 SITE 1 AC3 7 DA C 2 DA C 3 DT C 4 DT C 5 SITE 2 AC3 7 DT C 6 HOH C 209 HOH D 238 SITE 1 AC4 3 HOH C 206 HOH C 212 HOH C 220 SITE 1 AC5 6 DT A 4 HOH A 219 HOH A 223 HOH B 210 SITE 2 AC5 6 HOH B 233 HOH C 215 SITE 1 AC6 13 DA A 2 DA A 3 DT A 4 DT A 5 SITE 2 AC6 13 DT A 6 DA B 2 DA B 3 DT B 4 SITE 3 AC6 13 DT B 5 DT B 6 HOH B 204 HOH B 217 SITE 4 AC6 13 HOH B 225 SITE 1 AC7 6 HOH B 208 HOH B 209 HOH B 235 HOH B 246 SITE 2 AC7 6 HOH B 247 HOH B 249 CRYST1 22.330 40.250 72.423 90.00 93.67 90.00 I 1 2 1 16 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 0.044783 0.000000 0.002870 0.00000 SCALE2 0.000000 0.024845 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013836 0.00000