HEADER DNA 07-JUN-11 3SC8 TITLE CRYSTAL STRUCTURE OF AN INTRAMOLECULAR HUMAN TELOMERIC DNA G- TITLE 2 QUADRUPLEX BOUND BY THE NAPHTHALENE DIIMIDE BMSG-SH-3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HUMAN TELOMERIC REPEAT SEQUENCE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: DNA SEQUENCE SYNTHESIZED BY STANDARD BY SOURCE 4 PHOSPHORAMIDITE CHEMISTRY KEYWDS G-QUADRUPLEX, INTRAMOLECULAR, LIGAND-COMPLEX, TELOMERIC, DNA EXPDTA X-RAY DIFFRACTION AUTHOR G.W.COLLIE,R.PROMONTORIO,G.N.PARKINSON REVDAT 2 22-FEB-12 3SC8 1 JRNL REVDAT 1 15-FEB-12 3SC8 0 JRNL AUTH G.W.COLLIE,R.PROMONTORIO,S.M.HAMPEL,M.MICCO,S.NEIDLE, JRNL AUTH 2 G.N.PARKINSON JRNL TITL STRUCTURAL BASIS FOR TELOMERIC G-QUADRUPLEX TARGETING BY JRNL TITL 2 NAPHTHALENE DIIMIDE LIGANDS. JRNL REF J.AM.CHEM.SOC. V. 134 2723 2012 JRNL REFN ISSN 0002-7863 JRNL PMID 22280460 JRNL DOI 10.1021/JA2102423 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0072 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.30 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 3467 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) : 0.260 REMARK 3 R VALUE (WORKING SET) : 0.258 REMARK 3 FREE R VALUE : 0.288 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.400 REMARK 3 FREE R VALUE TEST SET COUNT : 161 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 240 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.4040 REMARK 3 BIN FREE R VALUE SET COUNT : 11 REMARK 3 BIN FREE R VALUE : 0.4810 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 447 REMARK 3 HETEROGEN ATOMS : 65 REMARK 3 SOLVENT ATOMS : 29 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 58.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.26 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : -0.01000 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): 0.389 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.266 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.223 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.573 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.931 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.916 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 572 ; 0.007 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 877 ; 1.048 ; 3.000 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL 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): 84 ; 0.060 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 261 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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 SIDE-CHAIN BOND REFINED ATOMS (A**2): 572 ; 1.831 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 877 ; 2.884 ; 4.500 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 : 5 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 2 A 5 REMARK 3 ORIGIN FOR THE GROUP (A): -19.0280 -14.7400 -0.9020 REMARK 3 T TENSOR REMARK 3 T11: 0.1706 T22: 0.3520 REMARK 3 T33: 0.2173 T12: 0.1202 REMARK 3 T13: -0.0841 T23: -0.1192 REMARK 3 L TENSOR REMARK 3 L11: 8.9591 L22: 6.3217 REMARK 3 L33: 5.7714 L12: 0.5922 REMARK 3 L13: 1.6308 L23: 1.3446 REMARK 3 S TENSOR REMARK 3 S11: -0.2620 S12: 0.2123 S13: 0.9019 REMARK 3 S21: -0.8007 S22: -0.0997 S23: 0.4667 REMARK 3 S31: -0.4757 S32: -0.4314 S33: 0.3617 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 : A 6 A 9 REMARK 3 ORIGIN FOR THE GROUP (A): -19.3900 -21.8120 -0.6520 REMARK 3 T TENSOR REMARK 3 T11: 0.0700 T22: 0.1199 REMARK 3 T33: 0.1663 T12: 0.0229 REMARK 3 T13: 0.0455 T23: -0.0543 REMARK 3 L TENSOR REMARK 3 L11: 14.0617 L22: 2.2653 REMARK 3 L33: 8.3360 L12: 1.2752 REMARK 3 L13: 9.7221 L23: 1.8100 REMARK 3 S TENSOR REMARK 3 S11: -0.0325 S12: -0.3200 S13: -0.6067 REMARK 3 S21: -0.1961 S22: 0.0252 S23: 0.0023 REMARK 3 S31: 0.0784 S32: -0.3380 S33: 0.0073 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 10 A 14 REMARK 3 ORIGIN FOR THE GROUP (A): -10.0900 -23.3570 11.8630 REMARK 3 T TENSOR REMARK 3 T11: 0.6613 T22: 0.2994 REMARK 3 T33: 0.1999 T12: 0.1035 REMARK 3 T13: 0.0649 T23: 0.0161 REMARK 3 L TENSOR REMARK 3 L11: 0.0432 L22: 4.9221 REMARK 3 L33: 10.9385 L12: -0.4507 REMARK 3 L13: 0.5448 L23: -6.0814 REMARK 3 S TENSOR REMARK 3 S11: -0.1025 S12: 0.0122 S13: 0.0245 REMARK 3 S21: 0.9255 S22: -0.3739 S23: -0.2077 REMARK 3 S31: 0.0551 S32: 0.5806 S33: 0.4765 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 15 A 18 REMARK 3 ORIGIN FOR THE GROUP (A): -5.6780 -7.8810 10.3380 REMARK 3 T TENSOR REMARK 3 T11: 0.4831 T22: 0.3550 REMARK 3 T33: 0.2120 T12: -0.2113 REMARK 3 T13: -0.0257 T23: -0.0304 REMARK 3 L TENSOR REMARK 3 L11: 7.6711 L22: 10.2499 REMARK 3 L33: 13.7216 L12: -0.6815 REMARK 3 L13: 3.9997 L23: 10.4854 REMARK 3 S TENSOR REMARK 3 S11: -0.5242 S12: 0.6259 S13: 0.1871 REMARK 3 S21: 0.1725 S22: 0.7920 S23: -0.3823 REMARK 3 S31: -0.3538 S32: 1.3182 S33: -0.2678 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 19 A 22 REMARK 3 ORIGIN FOR THE GROUP (A): -7.7740 -7.9220 3.4800 REMARK 3 T TENSOR REMARK 3 T11: 0.4706 T22: 0.2512 REMARK 3 T33: 0.2004 T12: -0.1351 REMARK 3 T13: -0.0276 T23: -0.0124 REMARK 3 L TENSOR REMARK 3 L11: 20.3792 L22: 3.8441 REMARK 3 L33: 8.9480 L12: 5.2859 REMARK 3 L13: 10.5318 L23: 4.1860 REMARK 3 S TENSOR REMARK 3 S11: 0.0168 S12: -0.2229 S13: 0.8582 REMARK 3 S21: 0.5714 S22: -0.1345 S23: -0.2014 REMARK 3 S31: -0.5280 S32: 0.3972 S33: 0.1177 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 3SC8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JUN-11. REMARK 100 THE RCSB ID CODE IS RCSB066025. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-APR-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91730 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 4385 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.170 REMARK 200 RESOLUTION RANGE LOW (A) : 26.230 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 9.500 REMARK 200 R MERGE (I) : 0.03300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 32.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.17 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.23 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.70 REMARK 200 R MERGE FOR SHELL (I) : 0.59000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.500 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 1KF1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.81 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20 % PEG400, 50 MM POTASSIUM CHLORIDE, REMARK 280 20 MM POTASSIUM CACODYLATE, 50 MM SODIUM CACODYLATE, 100 MM REMARK 280 LITHIUM SULFATE, PH 6.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 285K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 17.48667 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 34.97333 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 34.97333 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 17.48667 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 K K A 26 LIES ON A SPECIAL POSITION. 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 DA A 1 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 DT A 11 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DA A 13 C1' - O4' - C4' ANGL. DEV. = -7.9 DEGREES REMARK 500 DA A 13 O4' - C1' - N9 ANGL. DEV. = 4.5 DEGREES 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 K A 24 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG A 16 O6 REMARK 620 2 DG A 4 O6 131.2 REMARK 620 3 DG A 10 O6 86.1 72.6 REMARK 620 4 DG A 22 O6 74.0 80.8 121.8 REMARK 620 5 DG A 3 O6 147.8 75.0 123.7 96.4 REMARK 620 6 DG A 9 O6 121.5 89.6 66.3 164.1 68.7 REMARK 620 7 DG A 21 O6 79.8 136.2 149.2 80.4 68.3 98.3 REMARK 620 8 DG A 15 O6 62.5 150.8 84.4 127.5 104.8 64.3 64.8 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 25 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG A 21 O6 REMARK 620 2 DG A 3 O6 78.4 REMARK 620 3 DG A 9 O6 119.4 74.6 REMARK 620 4 DG A 2 O6 94.0 73.3 126.8 REMARK 620 5 DG A 8 O6 156.2 89.3 75.7 62.7 REMARK 620 6 DG A 15 O6 74.0 114.5 69.9 163.2 129.8 REMARK 620 7 DG A 14 O6 126.2 155.4 90.4 102.1 67.8 76.9 REMARK 620 8 DG A 20 O6 66.3 128.7 155.6 73.3 108.2 90.9 70.0 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 26 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG A 14 O6 REMARK 620 2 DG A 8 O6 72.2 REMARK 620 3 DG A 2 O6 109.5 65.2 REMARK 620 4 DG A 20 O6 72.0 110.6 73.9 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 24 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 25 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 26 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE R8G A 23 DBREF 3SC8 A 1 22 PDB 3SC8 3SC8 1 22 SEQRES 1 A 22 DA DG DG DG DT DT DA DG DG DG DT DT DA SEQRES 2 A 22 DG DG DG DT DT DA DG DG DG HET K A 24 1 HET K A 25 1 HET K A 26 1 HET R8G A 23 62 HETNAM K POTASSIUM ION HETNAM R8G 2,7-BIS[3-(4-METHYLPIPERAZIN-1-YL)PROPYL]-4,9-BIS{[3- HETNAM 2 R8G (4-METHYLPIPERAZIN-1-YL)PROPYL]AMINO}BENZO[LMN][3, HETNAM 3 R8G 8]PHENANTHROLINE-1,3,6,8(2H,7H)-TETRONE FORMUL 2 K 3(K 1+) FORMUL 5 R8G C46 H72 N12 O4 FORMUL 6 HOH *29(H2 O) LINK O6 DG A 16 K K A 24 1555 1555 2.58 LINK O6 DG A 4 K K A 24 1555 1555 2.59 LINK O6 DG A 21 K K A 25 1555 1555 2.60 LINK O6 DG A 10 K K A 24 1555 1555 2.64 LINK O6 DG A 22 K K A 24 1555 1555 2.67 LINK O6 DG A 3 K K A 25 1555 1555 2.71 LINK O6 DG A 14 K K A 26 1555 1555 2.78 LINK O6 DG A 8 K K A 26 1555 1555 2.78 LINK O6 DG A 2 K K A 26 1555 1555 2.79 LINK O6 DG A 9 K K A 25 1555 1555 2.80 LINK O6 DG A 3 K K A 24 1555 1555 2.86 LINK O6 DG A 2 K K A 25 1555 1555 2.88 LINK O6 DG A 8 K K A 25 1555 1555 2.90 LINK O6 DG A 15 K K A 25 1555 1555 2.96 LINK O6 DG A 14 K K A 25 1555 1555 2.97 LINK O6 DG A 9 K K A 24 1555 1555 3.05 LINK O6 DG A 20 K K A 25 1555 1555 3.11 LINK O6 DG A 21 K K A 24 1555 1555 3.11 LINK O6 DG A 20 K K A 26 1555 1555 3.14 LINK O6 DG A 15 K K A 24 1555 1555 3.16 SITE 1 AC1 9 DG A 3 DG A 4 DG A 9 DG A 10 SITE 2 AC1 9 DG A 15 DG A 16 DG A 21 DG A 22 SITE 3 AC1 9 K A 25 SITE 1 AC2 10 DG A 2 DG A 3 DG A 8 DG A 9 SITE 2 AC2 10 DG A 14 DG A 15 DG A 20 DG A 21 SITE 3 AC2 10 K A 24 K A 26 SITE 1 AC3 5 DG A 2 DG A 8 DG A 14 DG A 20 SITE 2 AC3 5 K A 25 SITE 1 AC4 9 DG A 4 DT A 5 DT A 6 DG A 10 SITE 2 AC4 9 DT A 11 DT A 12 DA A 13 DG A 16 SITE 3 AC4 9 DG A 22 CRYST1 50.870 50.870 52.460 90.00 90.00 120.00 P 31 2 1 6 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 0.019658 0.011350 0.000000 0.00000 SCALE2 0.000000 0.022699 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019062 0.00000 MASTER 423 0 4 0 0 0 11 6 0 0 0 2 END