PDB Short entry for 1S47 HEADER DNA 15-JAN-04 1S47 TITLE CRYSTAL STRUCTURE ANALYSIS OF THE DNA QUADRUPLEX D(TGGGGT)S2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*TP*GP*GP*GP*GP*T)-3'; COMPND 3 CHAIN: A, B, C, D, E, F, G, H, I, J, K, L; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THIS SEQUENCE OCCURS NATURALLY IN TETRAHYMENA. KEYWDS QUADRUPLEX DNA, THYMINE TRIADS AND TETRADS, THALLIUM, DNA EXPDTA X-RAY DIFFRACTION AUTHOR C.CACERES,G.WRIGHT,C.GOUYETTE,G.PARKINSON,J.A.SUBIRANA REVDAT 3 23-AUG-23 1S47 1 REMARK LINK REVDAT 2 24-FEB-09 1S47 1 VERSN REVDAT 1 24-FEB-04 1S47 0 JRNL AUTH C.CACERES,G.WRIGHT,C.GOUYETTE,G.PARKINSON,J.A.SUBIRANA JRNL TITL A THYMINE TETRAD IN D(TGGGGT) QUADRUPLEXES STABILIZED WITH JRNL TITL 2 TL+1/NA+1 IONS JRNL REF NUCLEIC ACIDS RES. V. 32 1097 2004 JRNL REFN ISSN 0305-1048 JRNL PMID 14960719 JRNL DOI 10.1093/NAR/GKH269 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.84 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 498502.870 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 79.0 REMARK 3 NUMBER OF REFLECTIONS : 4281 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 SET) : 0.224 REMARK 3 FREE R VALUE : 0.311 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.400 REMARK 3 FREE R VALUE TEST SET COUNT : 446 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.010 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.66 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 55.20 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 434 REMARK 3 BIN R VALUE (WORKING SET) : 0.2390 REMARK 3 BIN FREE R VALUE : 0.3450 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 12.70 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 126 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.031 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 1432 REMARK 3 HETEROGEN ATOMS : 13 REMARK 3 SOLVENT ATOMS : 86 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 6.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -13.16000 REMARK 3 B22 (A**2) : 15.31000 REMARK 3 B33 (A**2) : -2.16000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 2.95000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.30 REMARK 3 ESD FROM SIGMAA (A) : 0.28 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.45 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.43 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.004 REMARK 3 BOND ANGLES (DEGREES) : 0.700 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 24.70 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.090 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.710 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.430 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 47.32 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 2 : ION.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: FRIEDEL PAIRS ARE NOT MERGED IN THE REMARK 3 NUMBER OF UNIQUE REFLECTIONS FOR DATA COLLECTION REMARK 4 REMARK 4 1S47 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-JAN-04. REMARK 100 THE DEPOSITION ID IS D_1000021345. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 6.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9800 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10915 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : 5.430 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL 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) : 2.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.16000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: EPMR REMARK 200 STARTING MODEL: PDB ENTRY 1S45 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 400, SODIUM CACODYLATE, MAGNESIUM REMARK 280 CHLORIDE, SPERMINE, TETRAHYDROCHLORHIDE, THALLIUM ACETATE, REMARK 280 LYSINE-ANTHRAQUINONE, D(TGGGGT), PH 6.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 277K, PH 6.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 28.17050 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: E, F, G, H 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: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: I, J, K, L 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 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 DT A 106 O5' C5' C4' O4' C3' O3' C2' REMARK 470 DT A 106 C1' N1 C2 O2 N3 C4 O4 REMARK 470 DT A 106 C5 C7 C6 REMARK 470 DT G 806 O5' C5' C4' O4' C3' O3' C2' REMARK 470 DT G 806 C1' N1 C2 O2 N3 C4 O4 REMARK 470 DT G 806 C5 C7 C6 REMARK 470 DT J1136 O5' C5' C4' O4' C3' O3' C2' REMARK 470 DT J1136 C1' N1 C2 O2 N3 C4 O4 REMARK 470 DT J1136 C5 C7 C6 REMARK 470 DT L1356 O5' C5' C4' O4' C3' O3' C2' REMARK 470 DT L1356 C1' N1 C2 O2 N3 C4 O4 REMARK 470 DT L1356 C5 C7 C6 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 NA A1514 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DT A 101 O4 REMARK 620 2 DG A 102 O6 74.1 REMARK 620 3 DG B 212 O6 84.4 64.8 REMARK 620 4 DT C 321 O4 112.5 157.0 136.1 REMARK 620 5 DG C 322 O6 142.6 106.4 63.9 82.0 REMARK 620 6 DG D 432 O6 128.0 67.0 107.4 93.6 82.5 REMARK 620 7 TL D1704 TL 121.6 53.8 52.5 125.9 53.5 55.7 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 TL D1704 TL REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG A 102 O6 REMARK 620 2 DG A 103 O6 69.2 REMARK 620 3 DG B 212 O6 64.7 117.6 REMARK 620 4 DG B 213 O6 95.4 75.3 69.8 REMARK 620 5 DG C 322 O6 103.6 169.9 62.9 113.2 REMARK 620 6 DG C 323 O6 152.5 113.4 92.3 61.0 76.3 REMARK 620 7 DG D 432 O6 65.2 91.3 104.6 159.7 79.0 139.3 REMARK 620 8 DG D 433 O6 122.9 74.3 168.1 115.9 105.3 82.4 73.5 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 TL B1703 TL REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG A 103 O6 REMARK 620 2 DG A 104 O6 69.1 REMARK 620 3 DG B 213 O6 65.4 123.8 REMARK 620 4 DG B 214 O6 95.1 88.1 65.3 REMARK 620 5 DG B 214 N1 69.0 48.0 85.1 42.7 REMARK 620 6 DG C 323 O6 90.7 154.7 54.2 109.4 139.3 REMARK 620 7 DG C 324 O6 139.4 130.0 75.7 56.5 97.3 75.2 REMARK 620 8 DG D 433 O6 59.6 90.0 94.2 153.3 123.0 66.1 137.7 REMARK 620 9 DG D 434 O6 129.4 84.4 151.2 127.3 122.2 98.1 90.7 78.9 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A1515 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG A 105 O6 REMARK 620 2 DG B 215 O6 78.5 REMARK 620 3 TL B1703 TL 114.8 109.4 REMARK 620 4 DG C 325 O6 132.8 72.4 109.6 REMARK 620 5 DG D 435 O6 97.1 143.2 105.6 85.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA H1506 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG E 582 O6 REMARK 620 2 DG E 583 O6 73.5 REMARK 620 3 DG F 693 O6 87.5 72.5 REMARK 620 4 DG G 802 O6 117.0 159.5 123.3 REMARK 620 5 DG G 803 O6 151.0 111.2 68.0 68.9 REMARK 620 6 DG H 912 O6 71.1 89.4 155.4 78.6 135.8 REMARK 620 7 DG H 913 O6 133.1 72.5 111.6 88.5 73.0 77.2 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 TL E1701 TL REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG E 583 O6 REMARK 620 2 DG E 584 O6 73.2 REMARK 620 3 DG F 693 O6 69.8 126.3 REMARK 620 4 DG F 694 O6 84.6 61.4 77.4 REMARK 620 5 DG G 803 O6 105.2 166.0 63.9 132.6 REMARK 620 6 DG G 804 O6 151.9 105.8 90.6 71.3 82.3 REMARK 620 7 DG H 913 O6 69.5 98.5 103.3 151.5 68.3 136.7 REMARK 620 8 DG H 914 O6 128.8 69.4 161.0 105.9 103.0 73.3 82.8 REMARK 620 9 NA H1506 NA 53.1 124.1 51.4 120.4 52.1 128.6 51.9 132.7 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA E1507 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG E 584 O6 REMARK 620 2 DG E 585 O6 78.4 REMARK 620 3 DG F 695 O6 87.7 75.9 REMARK 620 4 DG H 914 O6 75.8 93.0 161.8 REMARK 620 5 DG H 915 O6 133.8 76.3 121.9 67.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA E1505 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG H 912 O6 REMARK 620 2 DG I1022 O6 98.5 REMARK 620 3 TL I1700 TL 127.5 62.9 REMARK 620 4 DG J1132 O6 67.4 66.7 60.1 REMARK 620 5 DG K1242 O6 110.9 119.0 56.6 77.1 REMARK 620 6 DG L1352 O6 169.0 76.8 59.4 118.3 79.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 TL I1700 TL REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG I1022 O6 REMARK 620 2 DG I1023 O6 72.2 REMARK 620 3 DG J1132 O6 56.3 120.0 REMARK 620 4 DG J1133 O6 90.2 69.6 81.4 REMARK 620 5 DG K1242 O6 100.7 155.7 69.4 134.5 REMARK 620 6 DG K1243 O6 153.4 111.2 103.7 67.8 85.7 REMARK 620 7 DG L1352 O6 67.0 81.4 102.2 147.8 74.5 139.1 REMARK 620 8 DG L1353 O6 125.5 63.5 176.2 101.8 106.8 75.6 76.4 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 TL I1702 TL REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG I1023 O6 REMARK 620 2 DG I1024 O6 84.6 REMARK 620 3 TL I1705 TL 130.0 49.3 REMARK 620 4 DG J1133 O6 72.7 141.1 129.4 REMARK 620 5 DG J1134 O6 92.9 77.0 62.6 73.2 REMARK 620 6 DG K1243 O6 104.8 149.9 124.6 68.2 129.6 REMARK 620 7 DG K1244 O6 163.3 109.3 61.0 90.6 81.8 67.8 REMARK 620 8 DG L1353 O6 64.2 85.5 119.7 110.8 152.5 73.8 124.4 REMARK 620 9 DG L1354 O6 134.1 67.1 51.4 149.0 113.5 87.0 62.0 77.7 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 TL I1705 TL REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG I1024 O6 REMARK 620 2 DG I1025 O6 75.6 REMARK 620 3 DG J1134 O6 75.5 139.7 REMARK 620 4 DG J1135 O6 92.4 82.6 71.3 REMARK 620 5 DG K1244 O6 113.9 147.1 71.5 126.2 REMARK 620 6 DG K1245 O6 169.2 108.9 95.6 78.7 67.9 REMARK 620 7 NA K1512 NA 126.2 56.4 126.7 61.0 119.5 54.5 REMARK 620 8 DG L1354 O6 78.9 88.5 112.6 168.9 64.3 110.6 118.9 REMARK 620 9 DG L1355 O6 126.7 67.9 152.0 118.8 82.7 63.7 57.9 63.1 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA K1512 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG I1025 O6 REMARK 620 2 DG K1245 O6 106.3 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA E 1505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA H 1506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA E 1507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA F 1510 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA K 1512 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 1514 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 1515 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TL I 1700 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TL E 1701 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TL I 1702 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TL B 1703 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TL D 1704 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TL I 1705 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: UDF036 RELATED DB: NDB REMARK 900 THE HIGH-RESOLUTION CRYSTAL STRUCTURE OF A PARALLEL-STRANDED REMARK 900 GUANINE TETRAPLEX REMARK 900 RELATED ID: UDF062 RELATED DB: NDB REMARK 900 THE CRYSTAL STRUCTURE OF A PARALLEL-STRANDED PARALLEL-STRANDED REMARK 900 GUANINE TETRAPLEX AT 0.95 ANGSTROM RESOLUTION REMARK 900 RELATED ID: DD0055 RELATED DB: NDB REMARK 900 STRUCTURE OF THE FIRST PARALLEL DNA QUADRUPLEX-DRUG COMPLEX REMARK 900 RELATED ID: UD0050 RELATED DB: NDB REMARK 900 CRYSTAL STRUCTURE ANALYSIS OF THE DNA QUADRUPLEX D(TGGGGT) S1 DBREF 1S47 A 101 106 PDB 1S47 1S47 101 106 DBREF 1S47 B 211 216 PDB 1S47 1S47 211 216 DBREF 1S47 C 321 326 PDB 1S47 1S47 321 326 DBREF 1S47 D 431 436 PDB 1S47 1S47 431 436 DBREF 1S47 E 581 586 PDB 1S47 1S47 581 586 DBREF 1S47 F 691 696 PDB 1S47 1S47 691 696 DBREF 1S47 G 801 806 PDB 1S47 1S47 801 806 DBREF 1S47 H 911 916 PDB 1S47 1S47 911 916 DBREF 1S47 I 1021 1026 PDB 1S47 1S47 1021 1026 DBREF 1S47 J 1131 1136 PDB 1S47 1S47 1131 1136 DBREF 1S47 K 1241 1246 PDB 1S47 1S47 1241 1246 DBREF 1S47 L 1351 1356 PDB 1S47 1S47 1351 1356 SEQRES 1 A 6 DT DG DG DG DG DT SEQRES 1 B 6 DT DG DG DG DG DT SEQRES 1 C 6 DT DG DG DG DG DT SEQRES 1 D 6 DT DG DG DG DG DT SEQRES 1 E 6 DT DG DG DG DG DT SEQRES 1 F 6 DT DG DG DG DG DT SEQRES 1 G 6 DT DG DG DG DG DT SEQRES 1 H 6 DT DG DG DG DG DT SEQRES 1 I 6 DT DG DG DG DG DT SEQRES 1 J 6 DT DG DG DG DG DT SEQRES 1 K 6 DT DG DG DG DG DT SEQRES 1 L 6 DT DG DG DG DG DT HET NA A1514 1 HET NA A1515 1 HET TL B1703 1 HET TL D1704 1 HET NA E1505 1 HET NA E1507 1 HET TL E1701 1 HET NA F1510 1 HET NA H1506 1 HET TL I1700 1 HET TL I1702 1 HET TL I1705 1 HET NA K1512 1 HETNAM NA SODIUM ION HETNAM TL THALLIUM (I) ION FORMUL 13 NA 7(NA 1+) FORMUL 15 TL 6(TL 1+) FORMUL 26 HOH *86(H2 O) LINK O4 DT A 101 NA NA A1514 1555 1555 2.85 LINK O6 DG A 102 NA NA A1514 1555 1555 2.89 LINK O6 DG A 102 TL TL D1704 1555 1555 2.91 LINK O6 DG A 103 TL TL B1703 1555 1555 3.27 LINK O6 DG A 103 TL TL D1704 1555 1555 2.76 LINK O6 DG A 104 TL TL B1703 1555 1555 2.85 LINK O6 DG A 105 NA NA A1515 1555 1555 2.73 LINK NA NA A1514 O6 DG B 212 1555 1555 2.84 LINK NA NA A1514 O4 DT C 321 1555 1555 2.91 LINK NA NA A1514 O6 DG C 322 1555 1555 2.77 LINK NA NA A1514 O6 DG D 432 1555 1555 2.88 LINK NA NA A1514 TL TL D1704 1555 1555 3.44 LINK NA NA A1515 O6 DG B 215 1555 1555 2.73 LINK NA NA A1515 TL TL B1703 1555 1555 3.45 LINK NA NA A1515 O6 DG C 325 1555 1555 2.75 LINK NA NA A1515 O6 DG D 435 1555 1555 2.68 LINK O6 DG B 212 TL TL D1704 1555 1555 2.83 LINK O6 DG B 213 TL TL B1703 1555 1555 3.26 LINK O6 DG B 213 TL TL D1704 1555 1555 3.01 LINK O6 DG B 214 TL TL B1703 1555 1555 3.00 LINK N1 DG B 214 TL TL B1703 1555 1555 3.24 LINK TL TL B1703 O6 DG C 323 1555 1555 3.00 LINK TL TL B1703 O6 DG C 324 1555 1555 2.94 LINK TL TL B1703 O6 DG D 433 1555 1555 3.12 LINK TL TL B1703 O6 DG D 434 1555 1555 2.50 LINK TL TL B1703 N1 DG D 434 1555 1555 3.51 LINK O6 DG C 322 TL TL D1704 1555 1555 2.86 LINK O6 DG C 323 TL TL D1704 1555 1555 2.58 LINK O6 DG D 432 TL TL D1704 1555 1555 2.99 LINK O6 DG D 433 TL TL D1704 1555 1555 2.49 LINK O6 DG E 582 NA NA H1506 1555 1555 2.98 LINK O6 DG E 583 TL TL E1701 1555 1555 2.89 LINK O6 DG E 583 NA NA H1506 1555 1555 2.84 LINK O6 DG E 584 NA NA E1507 1555 1555 3.00 LINK O6 DG E 584 TL TL E1701 1555 1555 3.16 LINK O6 DG E 585 NA NA E1507 1555 1555 2.83 LINK NA NA E1505 O6 DG H 912 1555 1555 2.78 LINK NA NA E1505 O6 DG I1022 1555 1555 2.73 LINK NA NA E1505 TL TL I1700 1555 1555 3.39 LINK NA NA E1505 O6 DG J1132 1555 1555 2.73 LINK NA NA E1505 O6 DG K1242 1555 1555 2.85 LINK NA NA E1505 O6 DG L1352 1555 1555 2.96 LINK NA NA E1507 O6 DG F 695 1555 1555 2.85 LINK NA NA E1507 O6 DG H 914 1555 1555 2.82 LINK NA NA E1507 O6 DG H 915 1555 1555 2.69 LINK TL TL E1701 O6 DG F 693 1555 1555 2.91 LINK TL TL E1701 O6 DG F 694 1555 1555 3.17 LINK TL TL E1701 O6 DG G 803 1555 1555 3.00 LINK TL TL E1701 O6 DG G 804 1555 1555 2.85 LINK TL TL E1701 O6 DG H 913 1555 1555 2.97 LINK TL TL E1701 O6 DG H 914 1555 1555 3.12 LINK TL TL E1701 NA NA H1506 1555 1555 3.39 LINK O6 DG F 693 NA NA H1506 1555 1555 2.77 LINK NA NA F1510 O HOH H1944 1555 1555 2.78 LINK O6 DG G 802 NA NA H1506 1555 1555 2.67 LINK O6 DG G 803 NA NA H1506 1555 1555 2.83 LINK O6 DG H 912 NA NA H1506 1555 1555 2.71 LINK O6 DG H 913 NA NA H1506 1555 1555 2.81 LINK O6 DG I1022 TL TL I1700 1555 1555 3.24 LINK O6 DG I1023 TL TL I1700 1555 1555 3.18 LINK O6 DG I1023 TL TL I1702 1555 1555 3.20 LINK O6 DG I1024 TL TL I1702 1555 1555 3.06 LINK O6 DG I1024 TL TL I1705 1555 1555 2.67 LINK O6 DG I1025 TL TL I1705 1555 1555 2.86 LINK O6 DG I1025 NA NA K1512 1555 1555 2.97 LINK TL TL I1700 O6 DG J1132 1555 1555 3.11 LINK TL TL I1700 O6 DG J1133 1555 1555 2.98 LINK TL TL I1700 O6 DG K1242 1555 1555 3.00 LINK TL TL I1700 O6 DG K1243 1555 1555 2.80 LINK TL TL I1700 O6 DG L1352 1555 1555 3.16 LINK TL TL I1700 O6 DG L1353 1555 1555 3.21 LINK TL TL I1702 TL TL I1705 1555 1555 3.31 LINK TL TL I1702 O6 DG J1133 1555 1555 2.71 LINK TL TL I1702 O6 DG J1134 1555 1555 2.69 LINK TL TL I1702 O6 DG K1243 1555 1555 3.03 LINK TL TL I1702 O6 DG K1244 1555 1555 2.99 LINK TL TL I1702 O6 DG L1353 1555 1555 3.12 LINK TL TL I1702 O6 DG L1354 1555 1555 3.30 LINK TL TL I1705 O6 DG J1134 1555 1555 3.16 LINK TL TL I1705 O6 DG J1135 1555 1555 3.01 LINK TL TL I1705 O6 DG K1244 1555 1555 3.21 LINK TL TL I1705 O6 DG K1245 1555 1555 2.90 LINK TL TL I1705 NA NA K1512 1555 1555 3.35 LINK TL TL I1705 O6 DG L1354 1555 1555 2.86 LINK TL TL I1705 O6 DG L1355 1555 1555 2.80 LINK O6 DG K1245 NA NA K1512 1555 1555 2.89 SITE 1 AC1 10 DG E 582 DG F 692 DG G 802 DG H 912 SITE 2 AC1 10 NA H1506 DG I1022 TL I1700 DG J1132 SITE 3 AC1 10 DG K1242 DG L1352 SITE 1 AC2 10 DG E 582 DG E 583 NA E1505 TL E1701 SITE 2 AC2 10 DG F 692 DG F 693 DG G 802 DG G 803 SITE 3 AC2 10 DG H 912 DG H 913 SITE 1 AC3 9 DG E 584 DG E 585 DG F 694 DG F 695 SITE 2 AC3 9 NA F1510 DG G 804 DG G 805 DG H 914 SITE 3 AC3 9 DG H 915 SITE 1 AC4 7 DG E 585 NA E1507 DG F 695 DT F 696 SITE 2 AC4 7 DG G 805 DG H 915 HOH H1944 SITE 1 AC5 5 DG I1025 TL I1705 DG J1135 DG K1245 SITE 2 AC5 5 DG L1355 SITE 1 AC6 7 DT A 101 DG A 102 DG B 212 DT C 321 SITE 2 AC6 7 DG C 322 DG D 432 TL D1704 SITE 1 AC7 9 DG A 104 DG A 105 DG B 214 DG B 215 SITE 2 AC7 9 TL B1703 DG C 324 DG C 325 DG D 434 SITE 3 AC7 9 DG D 435 SITE 1 AC8 10 NA E1505 DG I1022 DG I1023 TL I1702 SITE 2 AC8 10 DG J1132 DG J1133 DG K1242 DG K1243 SITE 3 AC8 10 DG L1352 DG L1353 SITE 1 AC9 9 DG E 583 DG E 584 DG F 693 DG F 694 SITE 2 AC9 9 DG G 803 DG G 804 DG H 913 DG H 914 SITE 3 AC9 9 NA H1506 SITE 1 BC1 10 DG I1023 DG I1024 TL I1700 TL I1705 SITE 2 BC1 10 DG J1133 DG J1134 DG K1243 DG K1244 SITE 3 BC1 10 DG L1353 DG L1354 SITE 1 BC2 10 DG A 103 DG A 104 NA A1515 DG B 213 SITE 2 BC2 10 DG B 214 DG C 323 DG C 324 DG D 433 SITE 3 BC2 10 DG D 434 TL D1704 SITE 1 BC3 10 DG A 102 DG A 103 NA A1514 DG B 212 SITE 2 BC3 10 DG B 213 TL B1703 DG C 322 DG C 323 SITE 3 BC3 10 DG D 432 DG D 433 SITE 1 BC4 10 DG I1024 DG I1025 TL I1702 DG J1134 SITE 2 BC4 10 DG J1135 DG K1244 DG K1245 NA K1512 SITE 3 BC4 10 DG L1354 DG L1355 CRYST1 28.319 56.341 51.746 90.00 99.17 90.00 P 1 21 1 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 0.035312 0.000000 0.005700 0.00000 SCALE2 0.000000 0.017749 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019575 0.00000