10 20 30 40 50 60 70 80 3EUI - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER DNA 10-OCT-08 3EUI
TITLE A BIMOLECULAR ANTI-PARALLEL-STRANDED OXYTRICHA NOVA TITLE 2 TELOMERIC QUADRUPLEX IN COMPLEX WITH A 3,6-DISUBSTITUTED TITLE 3 ACRIDINE BSU-6042 IN A LARGE UNIT CELL
COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'- COMPND 3 D(*DGP*DGP*DGP*DGP*DTP*DTP*DTP*DTP*DGP*DGP*DGP*DG)-3'; COMPND 4 CHAIN: A, B, C, D; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: BIMOLECULAR ANTI-PARALLEL-STRANDED DNA COMPND 7 QUADRUPLEX
SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THIS SEQUENCE OCCURS NATURALLY IN OXYTRICHA SOURCE 4 NOVA
KEYWDS QUADRUPLEX, OXYTRICHA NOVA, BSU-6042, BSU6042, ANTI- KEYWDS 2 PARALLEL, BIMOLECULAR, MACROMOLECULE, DNA, G-QUADRUPLEX
EXPDTA X-RAY DIFFRACTION
AUTHOR N.H.CAMPBELL,G.PARKINSON,S.NEIDLE
REVDAT 2 28-APR-09 3EUI 1 JRNL REVDAT 1 02-DEC-08 3EUI 0
JRNL AUTH N.H.CAMPBELL,M.PATEL,A.B.TOFA,R.GHOSH, JRNL AUTH 2 G.N.PARKINSON,S.NEIDLE JRNL TITL SELECTIVITY IN LIGAND RECOGNITION OF G-QUADRUPLEX JRNL TITL 2 LOOPS. JRNL REF BIOCHEMISTRY V. 48 1675 2009 JRNL REFN ISSN 0006-2960 JRNL PMID 19173611 JRNL DOI 10.1021/BI802233V
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.68 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.5 REMARK 3 NUMBER OF REFLECTIONS : 5575 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) : 0.237 REMARK 3 R VALUE (WORKING SET) : 0.234 REMARK 3 FREE R VALUE : 0.285 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 277 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 389 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.74 REMARK 3 BIN R VALUE (WORKING SET) : 0.2310 REMARK 3 BIN FREE R VALUE SET COUNT : 22 REMARK 3 BIN FREE R VALUE : 0.2890 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 1012 REMARK 3 HETEROGEN ATOMS : 102 REMARK 3 SOLVENT ATOMS : 162 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 34.25 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.77 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.36000 REMARK 3 B22 (A**2) : -3.27000 REMARK 3 B33 (A**2) : 3.63000 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): 0.878 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.311 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.225 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.406 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1237 ; 0.010 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1892 ; 2.150 ; 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): 188 ; 0.075 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 612 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 506 ; 0.340 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 694 ; 0.311 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 150 ; 0.204 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 30 ; 0.140 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 53 ; 0.224 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 17 ; 0.210 ; 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): 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): 1381 ; 1.817 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1892 ; 2.219 ; 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 : 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: NULL
REMARK 4 REMARK 4 3EUI COMPLIES WITH FORMAT V. 3.20, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-OCT-08. REMARK 100 THE RCSB ID CODE IS RCSB049782.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUN-06 REMARK 200 TEMPERATURE (KELVIN) : 105 REMARK 200 PH : 7.0 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 200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : OSMIC MIRRORS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : D*TREK REMARK 200 DATA SCALING SOFTWARE : D*TREK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 5854 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 27.720 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.5 REMARK 200 DATA REDUNDANCY : 3.610 REMARK 200 R MERGE (I) : 0.08700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.59 REMARK 200 R MERGE FOR SHELL (I) : 0.18100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.200 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 1L1H REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 34.61 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.88 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2 MICROLITER DROPS CONTAINING 5% V/ REMARK 280 V MPD, 0.50 MM DNA, 0.25 MM LIGAND, 40 MM POTASSIUM CHLORIDE, REMARK 280 5 MM MAGNESIUM CHLORIDE, 4.1 SPERMINE EQUILIBRATED AGAINST 35% REMARK 280 V/V MPD, PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 285.15K
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 27.67800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 24.31800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 21.27100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 24.31800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.67800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 21.27100 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 300 REMARK: THE ASYMMETRIC UNIT CONTAINS TWO BIOLOGICAL UNITS.
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: 3280 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 3490 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.1 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 350 REMARK 350 BIOMOLECULE: 2 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: 3300 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 3990 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.1 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, 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 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 DG A 2 O4' - C1' - N9 ANGL. DEV. = 2.8 DEGREES REMARK 500 DG A 3 O5' - C5' - C4' ANGL. DEV. = -6.2 DEGREES REMARK 500 DG A 4 O4' - C1' - N9 ANGL. DEV. = -4.4 DEGREES REMARK 500 DT A 7 O4' - C1' - N1 ANGL. DEV. = 3.1 DEGREES REMARK 500 DG A 9 O4' - C1' - N9 ANGL. DEV. = 5.5 DEGREES REMARK 500 DT A 8 C3' - O3' - P ANGL. DEV. = 7.3 DEGREES REMARK 500 DG A 11 O4' - C1' - N9 ANGL. DEV. = -4.4 DEGREES REMARK 500 DG B 16 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DT B 17 O4' - C4' - C3' ANGL. DEV. = -3.1 DEGREES REMARK 500 DT B 17 C1' - O4' - C4' ANGL. DEV. = -6.2 DEGREES REMARK 500 DT B 17 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DT B 17 C3' - O3' - P ANGL. DEV. = 8.8 DEGREES REMARK 500 DT B 20 O4' - C1' - N1 ANGL. DEV. = 7.2 DEGREES REMARK 500 DG B 22 C3' - C2' - C1' ANGL. DEV. = -5.6 DEGREES REMARK 500 DG B 23 O4' - C1' - N9 ANGL. DEV. = 2.6 DEGREES REMARK 500 DT C 29 N3 - C4 - O4 ANGL. DEV. = 4.5 DEGREES REMARK 500 DT C 29 C5 - C4 - O4 ANGL. DEV. = -4.8 DEGREES REMARK 500 DG C 33 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 DG C 34 C3' - O3' - P ANGL. DEV. = 7.3 DEGREES REMARK 500 DG D 37 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DT D 41 O4' - C4' - C3' ANGL. DEV. = -2.8 DEGREES REMARK 500 DT D 41 C5' - C4' - C3' ANGL. DEV. = 8.9 DEGREES REMARK 500 DT D 41 O4' - C1' - N1 ANGL. DEV. = 2.4 DEGREES REMARK 500 DT D 41 C3' - O3' - P ANGL. DEV. = 8.4 DEGREES REMARK 500 DT D 43 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DT D 44 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DG D 45 O5' - C5' - C4' ANGL. DEV. = -7.9 DEGREES REMARK 500 DG D 45 O4' - C1' - N9 ANGL. DEV. = 2.8 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 50 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG A 1 O6 REMARK 620 2 DG A 2 O6 73.6 REMARK 620 3 DG A 11 O6 167.4 100.5 REMARK 620 4 DG A 12 O6 105.5 179.0 80.4 REMARK 620 5 DG B 15 O6 99.9 63.4 67.6 116.5 REMARK 620 6 DG B 16 O6 71.9 115.2 101.7 64.0 70.8 REMARK 620 7 DG B 21 O6 76.7 109.8 115.8 70.3 173.2 113.2 REMARK 620 8 DG B 22 O6 115.3 67.0 70.9 114.0 105.3 172.6 71.4 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 51 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG A 2 O6 REMARK 620 2 DG A 3 O6 89.8 REMARK 620 3 DG A 10 O6 137.6 105.9 REMARK 620 4 DG A 11 O6 105.2 131.3 93.6 REMARK 620 5 DG B 14 O6 150.6 69.7 70.4 76.1 REMARK 620 6 DG B 22 O6 72.6 154.9 77.9 71.9 132.9 REMARK 620 7 DG B 23 O6 80.3 64.3 72.3 162.5 107.4 94.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 52 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG A 3 O6 REMARK 620 2 DG A 4 O6 68.0 REMARK 620 3 DG A 9 O6 170.9 119.0 REMARK 620 4 DG A 10 O6 101.3 164.6 70.6 REMARK 620 5 DG B 13 O6 109.6 77.7 78.5 117.2 REMARK 620 6 DG B 14 O6 73.2 119.4 105.9 65.0 73.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B 49 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG A 12 O6 REMARK 620 2 DG B 16 O6 63.5 REMARK 620 3 DT B 17 O2 133.8 80.6 REMARK 620 4 DT B 19 O2 150.2 130.5 75.7 REMARK 620 5 HOH B 66 O 98.5 160.3 110.1 69.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K C 54 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG C 25 O6 REMARK 620 2 DG C 26 O6 74.2 REMARK 620 3 DG C 35 O6 167.7 99.7 REMARK 620 4 DG C 36 O6 110.3 175.5 75.7 REMARK 620 5 DG D 40 O6 73.7 117.1 100.6 64.5 REMARK 620 6 DG D 45 O6 75.2 111.0 117.0 71.5 110.9 REMARK 620 7 DG D 46 O6 119.7 70.5 66.4 107.1 166.5 74.1 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K C 55 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG C 26 O6 REMARK 620 2 DG C 27 O6 88.4 REMARK 620 3 DG C 34 O6 134.9 110.4 REMARK 620 4 DG C 35 O6 103.8 133.9 92.1 REMARK 620 5 DG D 38 O6 154.0 73.7 70.2 77.3 REMARK 620 6 DG D 46 O6 74.5 155.2 72.6 69.0 127.9 REMARK 620 7 DG D 47 O6 78.9 65.4 73.3 160.1 109.1 93.3 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K C 56 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG C 27 O6 REMARK 620 2 DG C 28 O6 70.1 REMARK 620 3 DG C 33 O6 169.5 120.0 REMARK 620 4 DG D 37 O6 106.3 77.1 80.1 REMARK 620 5 DG D 38 O6 72.1 117.4 103.4 68.1 REMARK 620 6 DG D 48 O6 110.5 72.9 72.1 119.7 169.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K D 53 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG C 36 O6 REMARK 620 2 DT D 41 O2 124.4 REMARK 620 3 DT D 43 O2 156.2 79.1 REMARK 620 4 HOH D 130 O 94.8 112.9 77.3 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 50 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 51 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 52 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NC5 A 57 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K B 49 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SPM B 59 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K C 54 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K C 55 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K C 56 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NCI C 58 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K D 53
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1L1H RELATED DB: PDB REMARK 900 SAME QUADRUPLEX STRUCTURE BOUND WITH A DIFFERENT LIGAND BSU REMARK 900 -6039 REMARK 900 RELATED ID: 1JPQ RELATED DB: PDB REMARK 900 SAME QUADRUPLEX STRUCTURE IN ITS NATIVE FORM (LIGAND-FREE) REMARK 900 RELATED ID: 1JRN RELATED DB: PDB REMARK 900 SAME QUADRUPLEX STRUCTURE IN ITS NATIVE FORM (LIGAND-FREE) REMARK 900 RELATED ID: 3CE5 RELATED DB: PDB REMARK 900 A BIMOLECULAR PARALLEL-STRANDED HUMAN TELOMERIC QUADRUPLEX REMARK 900 IN COMPLEX WITH A 3,6,9-TRISUBSTITUTED ACRIDINE MOLECULAR REMARK 900 BRACO19 REMARK 900 RELATED ID: 3EM2 RELATED DB: PDB REMARK 900 A BIMOLECULAR ANTI-PARALLEL-STRANDED OXYTRICHA NOVA REMARK 900 TELOMERIC QUADRUPLEX IN COMPLEX WITH A 3,6-DISUBSTITUTED REMARK 900 ACRIDINE BSU-6038 REMARK 900 RELATED ID: 3EQW RELATED DB: PDB REMARK 900 A BIMOLECULAR ANTI-PARALLEL-STRANDED OXYTRICHA NOVA REMARK 900 TELOMERIC QUADRUPLEX IN COMPLEX WITH A 3,6-DISUBSTITUTED REMARK 900 ACRIDINE BSU-6042 IN SMALL UNIT CELL REMARK 900 RELATED ID: 3ERU RELATED DB: PDB REMARK 900 A BIMOLECULAR ANTI-PARALLEL-STRANDED OXYTRICHA NOVA REMARK 900 TELOMERIC QUADRUPLEX IN COMPLEX WITH A 3,6-DISUBSTITUTED REMARK 900 ACRIDINE BSU-6045 REMARK 900 RELATED ID: 3ES0 RELATED DB: PDB REMARK 900 A BIMOLECULAR ANTI-PARALLEL-STRANDED OXYTRICHA NOVA REMARK 900 TELOMERIC QUADRUPLEX IN COMPLEX WITH A 3,6-DISUBSTITUTED REMARK 900 ACRIDINE BSU-6048 REMARK 900 RELATED ID: 3ET8 RELATED DB: PDB REMARK 900 A BIMOLECULAR ANTI-PARALLEL-STRANDED OXYTRICHA NOVA REMARK 900 TELOMERIC QUADRUPLEX IN COMPLEX WITH A 3,6-DISUBSTITUTED REMARK 900 ACRIDINE BSU-6054 REMARK 900 RELATED ID: 3EUM RELATED DB: PDB REMARK 900 A BIMOLECULAR ANTI-PARALLEL-STRANDED OXYTRICHA NOVA REMARK 900 TELOMERIC QUADRUPLEX IN COMPLEX WITH A 3,6-DISUBSTITUTED REMARK 900 ACRIDINE BSU-6066
DBREF 3EUI A 1 12 PDB 3EUI 3EUI 1 12 DBREF 3EUI B 13 24 PDB 3EUI 3EUI 13 24 DBREF 3EUI C 25 36 PDB 3EUI 3EUI 25 36 DBREF 3EUI D 37 48 PDB 3EUI 3EUI 37 48
SEQRES 1 A 12 DG DG DG DG DT DT DT DT DG DG DG DG SEQRES 1 B 12 DG DG DG DG DT DT DT DT DG DG DG DG SEQRES 1 C 12 DG DG DG DG DT DT DT DT DG DG DG DG SEQRES 1 D 12 DG DG DG DG DT DT DT DT DG DG DG DG
HET K A 50 1 HET K A 51 1 HET K A 52 1 HET NC5 A 57 40 HET K B 49 1 HET SPM B 59 14 HET K C 54 1 HET K C 55 1 HET K C 56 1 HET NCI C 58 40 HET K D 53 1
HETNAM K POTASSIUM ION HETNAM NC5 3-[(2R)-2-ETHYLPIPERIDIN-1-YL]-N-[6-({3-[(2S)-2- HETNAM 2 NC5 ETHYLPIPERIDIN-1-YL]PROPANOYL}AMINO)ACRIDIN-3- HETNAM 3 NC5 YL]PROPANAMIDE HETNAM SPM SPERMINE HETNAM NCI 3,6-BIS{3-[(2R)-(2-ETHYLPIPERIDINO) HETNAM 2 NCI ]PROPIONAMIDO}ACRIDINE
HETSYN NCI N,N'-ACRIDINE-3,6-DIYLBIS{3-[(2R)-2-ETHYLPIPERIDIN-1- HETSYN 2 NCI YL]PROPANAMIDE}
FORMUL 5 K 8(K 1+) FORMUL 8 NC5 C33 H45 N5 O2 FORMUL 10 SPM C10 H26 N4 FORMUL 14 NCI C33 H45 N5 O2 FORMUL 16 HOH *162(H2 O)
LINK O6 DG A 1 K K A 50 1555 1555 2.77 LINK O6 DG A 2 K K A 50 1555 1555 2.85 LINK O6 DG A 2 K K A 51 1555 1555 2.59 LINK O6 DG A 3 K K A 51 1555 1555 3.00 LINK O6 DG A 3 K K A 52 1555 1555 2.78 LINK O6 DG A 4 K K A 52 1555 1555 2.68 LINK O6 DG A 9 K K A 52 1555 1555 2.69 LINK O6 DG A 10 K K A 51 1555 1555 2.59 LINK O6 DG A 10 K K A 52 1555 1555 3.00 LINK O6 DG A 11 K K A 50 1555 1555 2.84 LINK O6 DG A 11 K K A 51 1555 1555 2.90 LINK O6 DG A 12 K K B 49 1555 1555 2.60 LINK O6 DG A 12 K K A 50 1555 1555 2.74 LINK O6 DG B 13 K K A 52 1555 1555 2.69 LINK O6 DG B 14 K K A 51 1555 1555 2.78 LINK O6 DG B 14 K K A 52 1555 1555 2.77 LINK O6 DG B 15 K K A 50 1555 1555 2.97 LINK O6 DG B 16 K K B 49 1555 1555 2.85 LINK O6 DG B 16 K K A 50 1555 1555 2.68 LINK O2 DT B 17 K K B 49 1555 1555 2.66 LINK O2 DT B 19 K K B 49 1555 1555 2.59 LINK O6 DG B 21 K K A 50 1555 1555 2.84 LINK O6 DG B 22 K K A 50 1555 1555 2.90 LINK O6 DG B 22 K K A 51 1555 1555 2.76 LINK O6 DG B 23 K K A 51 1555 1555 2.75 LINK O6 DG C 25 K K C 54 1555 1555 2.63 LINK O6 DG C 26 K K C 54 1555 1555 2.72 LINK O6 DG C 26 K K C 55 1555 1555 2.60 LINK O6 DG C 27 K K C 55 1555 1555 2.89 LINK O6 DG C 27 K K C 56 1555 1555 2.96 LINK O6 DG C 28 K K C 56 1555 1555 2.64 LINK O6 DG C 33 K K C 56 1555 1555 2.59 LINK O6 DG C 34 K K C 55 1555 1555 2.68 LINK O6 DG C 35 K K C 54 1555 1555 2.87 LINK O6 DG C 35 K K C 55 1555 1555 2.83 LINK O6 DG C 36 K K C 54 1555 1555 2.76 LINK O6 DG C 36 K K D 53 1555 1555 2.83 LINK O6 DG D 37 K K C 56 1555 1555 2.70 LINK O6 DG D 38 K K C 55 1555 1555 2.81 LINK O6 DG D 38 K K C 56 1555 1555 2.85 LINK O6 DG D 40 K K C 54 1555 1555 2.87 LINK O2 DT D 41 K K D 53 1555 1555 2.66 LINK O2 DT D 43 K K D 53 1555 1555 2.44 LINK O6 DG D 45 K K C 54 1555 1555 2.76 LINK O6 DG D 46 K K C 54 1555 1555 2.98 LINK O6 DG D 46 K K C 55 1555 1555 2.83 LINK O6 DG D 47 K K C 55 1555 1555 2.83 LINK O6 DG D 48 K K C 56 1555 1555 2.75 LINK K K B 49 O HOH B 66 1555 1555 2.56 LINK K K D 53 O HOH D 130 1555 1555 2.68
SITE 1 AC1 10 DG A 1 DG A 2 DG A 11 DG A 12 SITE 2 AC1 10 K A 51 DG B 15 DG B 16 DG B 21 SITE 3 AC1 10 DG B 22 K B 49 SITE 1 AC2 10 DG A 2 DG A 3 DG A 10 DG A 11 SITE 2 AC2 10 K A 50 K A 52 DG B 14 DG B 15 SITE 3 AC2 10 DG B 22 DG B 23 SITE 1 AC3 9 DG A 3 DG A 4 DG A 9 DG A 10 SITE 2 AC3 9 K A 51 DG B 13 DG B 14 DG B 23 SITE 3 AC3 9 DG B 24 SITE 1 AC4 10 DT A 6 DT A 7 DT A 8 DG A 9 SITE 2 AC4 10 HOH A 63 HOH A 97 DG B 13 DG B 24 SITE 3 AC4 10 DT D 44 DG D 46 SITE 1 AC5 8 DG A 1 DG A 12 K A 50 DG B 16 SITE 2 AC5 8 DT B 17 DT B 19 DG B 21 HOH B 66 SITE 1 AC6 5 DT B 17 DT B 18 DT B 19 DG C 35 SITE 2 AC6 5 DG C 36 SITE 1 AC7 10 DG C 25 DG C 26 DG C 35 DG C 36 SITE 2 AC7 10 K C 55 DG D 39 DG D 40 DG D 45 SITE 3 AC7 10 DG D 46 K D 53 SITE 1 AC8 10 DG C 26 DG C 27 DG C 34 DG C 35 SITE 2 AC8 10 K C 54 K C 56 DG D 38 DG D 39 SITE 3 AC8 10 DG D 46 DG D 47 SITE 1 AC9 9 DG C 27 DG C 28 DG C 33 DG C 34 SITE 2 AC9 9 K C 55 DG D 37 DG D 38 DG D 47 SITE 3 AC9 9 DG D 48 SITE 1 BC1 10 DT B 20 DG B 21 DG B 22 DT C 30 SITE 2 BC1 10 DT C 31 DT C 32 DG C 33 HOH C 105 SITE 3 BC1 10 DG D 37 DG D 48 SITE 1 BC2 8 DG C 25 DG C 36 K C 54 DG D 40 SITE 2 BC2 8 DT D 41 DT D 43 DG D 45 HOH D 130
CRYST1 55.356 42.542 48.636 90.00 90.00 90.00 P 21 21 21 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 0.018065 0.000000 0.000000 0.00000
SCALE2 0.000000 0.023506 0.000000 0.00000
SCALE3 0.000000 0.000000 0.020561 0.00000