HEADER RNA 20-APR-21 7OAX TITLE CRYSTAL STRUCTURE OF THE CHILI RNA APTAMER IN COMPLEX WITH DMHBO+ COMPND MOL_ID: 1; COMPND 2 MOLECULE: CHILI RNA APTAMER; COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630 KEYWDS RNA APTAMER, APTAMER, CHILI, FLUOROGENIC RNA, RNA EXPDTA X-RAY DIFFRACTION AUTHOR M.MIECZKOWSKI,V.PENA,C.HOEBARTNER REVDAT 3 31-JAN-24 7OAX 1 REMARK REVDAT 2 23-JUN-21 7OAX 1 JRNL REVDAT 1 16-JUN-21 7OAX 0 JRNL AUTH M.MIECZKOWSKI,C.STEINMETZGER,I.BESSI,A.K.LENZ,A.SCHMIEDEL, JRNL AUTH 2 M.HOLZAPFEL,C.LAMBERT,V.PENA,C.HOBARTNER JRNL TITL LARGE STOKES SHIFT FLUORESCENCE ACTIVATION IN AN RNA APTAMER JRNL TITL 2 BY INTERMOLECULAR PROTON TRANSFER TO GUANINE. JRNL REF NAT COMMUN V. 12 3549 2021 JRNL REFN ESSN 2041-1723 JRNL PMID 34112799 JRNL DOI 10.1038/S41467-021-23932-0 REMARK 2 REMARK 2 RESOLUTION. 2.24 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.16_3549 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.24 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.97 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 76.5 REMARK 3 NUMBER OF REFLECTIONS : 25382 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.204 REMARK 3 R VALUE (WORKING SET) : 0.202 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1269 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 40.9700 - 4.6600 0.99 3678 195 0.1369 0.1553 REMARK 3 2 4.6600 - 3.7000 1.00 3533 186 0.1650 0.2053 REMARK 3 3 3.7000 - 3.2300 0.99 3490 183 0.2319 0.2981 REMARK 3 4 3.2300 - 2.9400 1.00 3483 182 0.2633 0.3099 REMARK 3 5 2.9400 - 2.7300 1.00 3455 182 0.3410 0.3608 REMARK 3 6 2.7300 - 2.5700 0.90 3097 163 0.3622 0.4045 REMARK 3 7 2.5700 - 2.4400 0.45 1556 83 0.3371 0.3842 REMARK 3 8 2.4400 - 2.3300 0.31 1054 54 0.3733 0.5386 REMARK 3 9 2.3300 - 2.2400 0.22 768 41 0.4009 0.4500 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.336 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 36.501 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 61.21 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 68.46 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.002 5246 REMARK 3 ANGLE : 0.560 8138 REMARK 3 CHIRALITY : 0.024 1036 REMARK 3 PLANARITY : 0.002 224 REMARK 3 DIHEDRAL : 14.946 2568 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 15 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 2 THROUGH 6 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.8951 -18.1896 -25.0065 REMARK 3 T TENSOR REMARK 3 T11: 0.6953 T22: 0.8441 REMARK 3 T33: 0.8163 T12: -0.1273 REMARK 3 T13: -0.1427 T23: -0.0459 REMARK 3 L TENSOR REMARK 3 L11: 5.9108 L22: 9.1108 REMARK 3 L33: 7.9595 L12: -0.9047 REMARK 3 L13: 5.0079 L23: 1.3412 REMARK 3 S TENSOR REMARK 3 S11: 0.5142 S12: -1.2645 S13: -0.3618 REMARK 3 S21: -1.3704 S22: -0.3921 S23: 1.0876 REMARK 3 S31: 0.0042 S32: 0.2995 S33: -0.3063 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 7 THROUGH 26 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.3702 -7.67561.2479309 REMARK 3 T TENSOR REMARK 3 T11: 0.5122 T22: 0.3694 REMARK 3 T33: 0.4560 T12: 0.0901 REMARK 3 T13: 0.0590 T23: -0.0002 REMARK 3 L TENSOR REMARK 3 L11: 2.9430 L22: 3.4048 REMARK 3 L33: 3.7310 L12: 1.1542 REMARK 3 L13: 1.1384 L23: 2.5029 REMARK 3 S TENSOR REMARK 3 S11: -0.0199 S12: 0.0693 S13: -0.5509 REMARK 3 S21: 0.6870 S22: 0.0991 S23: -0.3927 REMARK 3 S31: 0.2686 S32: 0.2220 S33: -0.1051 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 27 THROUGH 31 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.1823 -7.6916 -0.0478 REMARK 3 T TENSOR REMARK 3 T11: 0.6189 T22: 0.3908 REMARK 3 T33: 0.5434 T12: 0.1069 REMARK 3 T13: -0.0390 T23: 0.0361 REMARK 3 L TENSOR REMARK 3 L11: 9.2658 L22: 2.1106 REMARK 3 L33: 3.3064 L12: 2.0124 REMARK 3 L13: 1.5792 L23: 0.5741 REMARK 3 S TENSOR REMARK 3 S11: -0.0838 S12: 0.3444 S13: -0.5537 REMARK 3 S21: 1.7786 S22: 0.1959 S23: -0.3429 REMARK 3 S31: 0.6592 S32: 0.6294 S33: -0.1025 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 32 THROUGH 36 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.7079 -14.5556 -16.1078 REMARK 3 T TENSOR REMARK 3 T11: 0.9975 T22: 0.8265 REMARK 3 T33: 0.7749 T12: 0.3247 REMARK 3 T13: 0.1462 T23: -0.2092 REMARK 3 L TENSOR REMARK 3 L11: 1.3439 L22: 3.2098 REMARK 3 L33: 7.6063 L12: -1.9503 REMARK 3 L13: -3.1464 L23: 4.8670 REMARK 3 S TENSOR REMARK 3 S11: 0.2532 S12: 0.7664 S13: -1.5331 REMARK 3 S21: -1.7455 S22: -0.1625 S23: -0.8291 REMARK 3 S31: -0.1233 S32: 1.1557 S33: -0.2747 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 37 THROUGH 46 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.5345 -18.2063 -8.4130 REMARK 3 T TENSOR REMARK 3 T11: 0.6536 T22: 0.3329 REMARK 3 T33: 0.6889 T12: -0.0489 REMARK 3 T13: 0.0072 T23: -0.1087 REMARK 3 L TENSOR REMARK 3 L11: 3.9578 L22: 3.5446 REMARK 3 L33: 5.1970 L12: -3.3965 REMARK 3 L13: -0.1250 L23: -1.6917 REMARK 3 S TENSOR REMARK 3 S11: -0.2597 S12: -0.0479 S13: -0.8184 REMARK 3 S21: -0.0510 S22: 0.2174 S23: -0.2448 REMARK 3 S31: 1.0633 S32: -0.6448 S33: -0.0408 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 47 THROUGH 52 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.9768 -12.5600 -28.2404 REMARK 3 T TENSOR REMARK 3 T11: 0.8132 T22: 0.8638 REMARK 3 T33: 0.7382 T12: 0.0220 REMARK 3 T13: -0.2557 T23: -0.0146 REMARK 3 L TENSOR REMARK 3 L11: 4.7649 L22: 2.2331 REMARK 3 L33: 8.4738 L12: 2.8396 REMARK 3 L13: 4.1313 L23: 2.7905 REMARK 3 S TENSOR REMARK 3 S11: -0.6861 S12: 0.4682 S13: -0.1905 REMARK 3 S21: -0.6508 S22: 0.5517 S23: 0.7899 REMARK 3 S31: -1.4462 S32: -0.3177 S33: 0.1065 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 2 THROUGH 31 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.8959 -8.2577 10.1796 REMARK 3 T TENSOR REMARK 3 T11: 0.3345 T22: 0.3445 REMARK 3 T33: 0.3274 T12: -0.0907 REMARK 3 T13: 0.0726 T23: -0.0032 REMARK 3 L TENSOR REMARK 3 L11: 5.8291 L22: 3.7240 REMARK 3 L33: 7.5731 L12: -1.1618 REMARK 3 L13: 3.5782 L23: -2.7160 REMARK 3 S TENSOR REMARK 3 S11: 0.1561 S12: -0.4177 S13: -0.4307 REMARK 3 S21: -0.3526 S22: 0.2069 S23: 0.1531 REMARK 3 S31: 0.3102 S32: -0.8553 S33: -0.3824 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 32 THROUGH 36 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.7794 -13.5845 22.9399 REMARK 3 T TENSOR REMARK 3 T11: 0.7702 T22: 1.0521 REMARK 3 T33: 0.7696 T12: -0.0308 REMARK 3 T13: 0.2049 T23: 0.4364 REMARK 3 L TENSOR REMARK 3 L11: 1.4581 L22: 1.8730 REMARK 3 L33: 7.9489 L12: 0.6528 REMARK 3 L13: -0.6456 L23: 3.1922 REMARK 3 S TENSOR REMARK 3 S11: 0.0701 S12: -2.5414 S13: -2.1633 REMARK 3 S21: 2.4013 S22: 0.2648 S23: 1.2864 REMARK 3 S31: 0.9139 S32: -0.2846 S33: -0.2153 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 37 THROUGH 52 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.4442 -15.5836 22.4026 REMARK 3 T TENSOR REMARK 3 T11: 0.3688 T22: 0.3815 REMARK 3 T33: 0.4418 T12: -0.0067 REMARK 3 T13: -0.0022 T23: 0.0606 REMARK 3 L TENSOR REMARK 3 L11: 3.5150 L22: 4.2570 REMARK 3 L33: 8.2752 L12: -0.0291 REMARK 3 L13: 1.4387 L23: -2.0242 REMARK 3 S TENSOR REMARK 3 S11: -0.0766 S12: -0.5936 S13: -0.0450 REMARK 3 S21: 0.1800 S22: -0.0237 S23: -0.2989 REMARK 3 S31: 0.4213 S32: 0.3927 S33: 0.1437 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 2 THROUGH 31 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.3080 11.7048 11.9872 REMARK 3 T TENSOR REMARK 3 T11: 0.4252 T22: 0.2576 REMARK 3 T33: 0.3034 T12: -0.0420 REMARK 3 T13: -0.0424 T23: 0.0192 REMARK 3 L TENSOR REMARK 3 L11: 3.7868 L22: 3.9028 REMARK 3 L33: 5.6664 L12: -1.1141 REMARK 3 L13: -2.9911 L23: 2.5513 REMARK 3 S TENSOR REMARK 3 S11: 0.1261 S12: -0.2127 S13: 0.0975 REMARK 3 S21: -0.1941 S22: -0.0491 S23: 0.0093 REMARK 3 S31: -0.1428 S32: 0.2788 S33: -0.0736 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 32 THROUGH 36 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.3471 16.8535 24.7835 REMARK 3 T TENSOR REMARK 3 T11: 1.1277 T22: 0.8479 REMARK 3 T33: 0.6124 T12: -0.1132 REMARK 3 T13: -0.0710 T23: -0.2217 REMARK 3 L TENSOR REMARK 3 L11: 1.7924 L22: 0.5004 REMARK 3 L33: 1.6159 L12: 0.6414 REMARK 3 L13: 1.6906 L23: 0.6808 REMARK 3 S TENSOR REMARK 3 S11: 0.3653 S12: -2.0431 S13: 1.1773 REMARK 3 S21: 1.2661 S22: -0.3345 S23: -0.2024 REMARK 3 S31: -0.9312 S32: 0.6858 S33: -0.1075 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 37 THROUGH 52 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.3703 18.0195 25.3870 REMARK 3 T TENSOR REMARK 3 T11: 0.5668 T22: 0.5697 REMARK 3 T33: 0.4671 T12: -0.0150 REMARK 3 T13: 0.0396 T23: -0.0383 REMARK 3 L TENSOR REMARK 3 L11: 5.8887 L22: 4.8806 REMARK 3 L33: 4.1425 L12: -1.6164 REMARK 3 L13: -2.9105 L23: 3.3898 REMARK 3 S TENSOR REMARK 3 S11: -0.1307 S12: -0.3431 S13: -0.2820 REMARK 3 S21: 0.4554 S22: -0.2006 S23: 0.1970 REMARK 3 S31: -0.3127 S32: -0.5320 S33: 0.2796 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 2 THROUGH 31 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.7317 12.5406 -5.2827 REMARK 3 T TENSOR REMARK 3 T11: 0.4086 T22: 0.2981 REMARK 3 T33: 0.3110 T12: 0.1369 REMARK 3 T13: -0.0811 T23: -0.0290 REMARK 3 L TENSOR REMARK 3 L11: 2.1250 L22: 5.0956 REMARK 3 L33: 3.0103 L12: 1.0113 REMARK 3 L13: 0.2101 L23: -3.0320 REMARK 3 S TENSOR REMARK 3 S11: -0.0791 S12: 0.1192 S13: 0.0395 REMARK 3 S21: 0.9009 S22: 0.2063 S23: -0.2075 REMARK 3 S31: -0.6572 S32: -0.4740 S33: -0.1406 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 32 THROUGH 36 ) REMARK 3 ORIGIN FOR THE GROUP (A): -11.7137 16.9649 -18.0678 REMARK 3 T TENSOR REMARK 3 T11: 0.9851 T22: 0.9623 REMARK 3 T33: 0.6308 T12: 0.0891 REMARK 3 T13: -0.0405 T23: 0.2376 REMARK 3 L TENSOR REMARK 3 L11: 3.4910 L22: 2.0033 REMARK 3 L33: 3.6431 L12: 1.5503 REMARK 3 L13: 1.3024 L23: -0.3294 REMARK 3 S TENSOR REMARK 3 S11: -0.2759 S12: 2.3379 S13: 1.0399 REMARK 3 S21: -2.3714 S22: 0.6131 S23: 0.4908 REMARK 3 S31: 0.2016 S32: -1.2854 S33: -0.4394 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 37 THROUGH 52 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.8536 17.8421 -18.7221 REMARK 3 T TENSOR REMARK 3 T11: 0.4759 T22: 0.4615 REMARK 3 T33: 0.5447 T12: -0.0158 REMARK 3 T13: 0.0649 T23: -0.0308 REMARK 3 L TENSOR REMARK 3 L11: 2.7058 L22: 3.3707 REMARK 3 L33: 4.4208 L12: 1.0804 REMARK 3 L13: -0.6426 L23: -3.4589 REMARK 3 S TENSOR REMARK 3 S11: -0.4410 S12: 0.3691 S13: -0.4360 REMARK 3 S21: -0.3576 S22: -0.0234 S23: -1.0231 REMARK 3 S31: -0.1432 S32: 0.5323 S33: 0.4725 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7OAX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 20-APR-21. REMARK 100 THE DEPOSITION ID IS D_1292110912. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-FEB-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.4 - 5.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9998 REMARK 200 MONOCHROMATOR : M REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : STARANISO REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25428 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.240 REMARK 200 RESOLUTION RANGE LOW (A) : 40.970 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.5 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.24 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.34 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.5 REMARK 200 DATA REDUNDANCY IN SHELL : 6.30 REMARK 200 R MERGE FOR SHELL (I) : 0.95400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.900 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: 7OA3 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 400, MES, SPERMINE REMARK 280 TETRAHYDROCHLORIDE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293.15K 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 29.66200 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 56.64700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 50.17600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 56.64700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.66200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 50.17600 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8930 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -61.0 KCAL/MOL 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 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 G A 1 REMARK 465 G B 1 REMARK 465 G C 1 REMARK 465 G D 1 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OP1 G A 2 O3' GTP A 101 1.96 REMARK 500 O5' G C 2 O3' GTP C 101 2.11 REMARK 500 P G A 2 C3' GTP A 101 2.11 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 U D 33 C2 - N1 - C1' ANGL. DEV. = 8.4 DEGREES REMARK 500 U D 34 N1 - C2 - O2 ANGL. DEV. = 5.0 DEGREES REMARK 500 U D 34 N3 - C2 - O2 ANGL. DEV. = -4.6 DEGREES REMARK 500 U D 34 C2 - N1 - C1' ANGL. DEV. = 8.8 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 106 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 9 O6 REMARK 620 2 G A 12 O6 75.8 REMARK 620 3 G A 13 O6 114.3 64.1 REMARK 620 4 G A 32 O6 75.5 104.5 67.7 REMARK 620 5 G A 36 O6 72.3 119.1 173.5 115.3 REMARK 620 6 G A 37 O6 116.8 165.4 102.5 73.5 73.6 REMARK 620 7 G A 42 O6 131.5 77.7 88.7 151.2 86.6 97.1 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 107 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 13 O6 REMARK 620 2 G A 15 O6 94.0 REMARK 620 3 G A 32 O6 67.5 153.2 REMARK 620 4 G A 37 O6 103.7 133.3 72.0 REMARK 620 5 G A 41 O6 71.1 74.2 114.6 71.5 REMARK 620 6 V5Z A 102 O28 121.4 105.9 71.3 101.0 167.2 REMARK 620 7 V5Z A 102 O31 81.5 65.7 91.6 158.6 129.1 59.8 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 108 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 17 O6 REMARK 620 2 U A 30 O4 68.9 REMARK 620 3 G A 31 O6 63.3 56.5 REMARK 620 4 HOH A 206 O 115.9 91.1 146.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B 105 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G B 9 O6 REMARK 620 2 G B 12 O6 72.8 REMARK 620 3 G B 13 O6 112.2 62.0 REMARK 620 4 G B 32 O6 71.1 103.2 73.4 REMARK 620 5 G B 36 O6 69.3 118.9 178.5 107.3 REMARK 620 6 G B 37 O6 111.9 171.8 109.8 72.8 69.3 REMARK 620 7 G B 41 O6 172.9 111.4 66.6 102.1 111.9 63.3 REMARK 620 8 G B 42 O6 127.1 82.8 95.1 161.6 83.9 98.8 59.8 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B 106 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G B 13 O6 REMARK 620 2 G B 15 O6 94.7 REMARK 620 3 G B 32 O6 67.1 152.3 REMARK 620 4 G B 37 O6 101.7 137.3 69.3 REMARK 620 5 G B 41 O6 71.6 76.8 113.9 71.5 REMARK 620 6 V5Z B 103 O28 118.4 105.7 68.9 100.6 168.9 REMARK 620 7 V5Z B 103 O31 80.4 66.9 88.8 154.5 131.6 57.8 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B 107 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G B 17 O6 REMARK 620 2 G B 29 O6 63.9 REMARK 620 3 U B 30 O4 72.4 58.2 REMARK 620 4 G B 31 O6 60.4 105.6 60.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K C 105 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G C 9 O6 REMARK 620 2 G C 12 O6 80.0 REMARK 620 3 G C 13 O6 115.2 65.6 REMARK 620 4 G C 32 O6 73.9 109.9 69.6 REMARK 620 5 G C 36 O6 70.2 120.5 173.1 109.3 REMARK 620 6 G C 37 O6 107.0 172.3 107.8 69.9 65.8 REMARK 620 7 G C 41 O6 172.5 107.4 68.3 102.2 105.8 65.6 REMARK 620 8 G C 42 O6 126.4 80.8 100.9 159.3 77.9 97.1 57.2 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K C 106 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G C 13 O6 REMARK 620 2 G C 15 O6 90.3 REMARK 620 3 G C 32 O6 63.3 152.5 REMARK 620 4 G C 37 O6 97.9 133.6 62.8 REMARK 620 5 G C 41 O6 71.7 71.1 105.2 68.5 REMARK 620 6 V5Z C 103 O28 115.5 116.9 72.0 100.5 168.1 REMARK 620 7 V5Z C 103 O31 75.5 77.7 87.5 148.6 133.9 58.0 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K C 107 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G C 17 O6 REMARK 620 2 G C 29 O6 64.5 REMARK 620 3 U C 30 O4 75.9 57.1 REMARK 620 4 G C 31 O6 65.9 107.8 62.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K D 105 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G D 9 O6 REMARK 620 2 G D 12 O6 75.6 REMARK 620 3 G D 13 O6 117.4 64.4 REMARK 620 4 G D 32 O6 75.6 111.8 77.3 REMARK 620 5 G D 36 O6 70.3 110.8 167.5 114.9 REMARK 620 6 G D 37 O6 107.7 176.3 114.6 71.0 69.4 REMARK 620 7 G D 42 O6 128.0 83.0 93.4 155.8 74.4 93.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K D 106 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G D 13 O6 REMARK 620 2 G D 15 O6 91.9 REMARK 620 3 G D 32 O6 72.8 157.4 REMARK 620 4 G D 37 O6 104.1 136.5 65.0 REMARK 620 5 G D 41 O6 77.6 71.2 119.6 73.3 REMARK 620 6 V5Z D 103 O28 119.2 108.1 67.7 98.8 163.0 REMARK 620 7 V5Z D 103 O31 76.0 69.0 90.7 153.7 130.8 60.7 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K D 107 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G D 17 O6 REMARK 620 2 U D 30 O4 72.6 REMARK 620 3 G D 31 O6 61.7 57.1 REMARK 620 4 HOH D 213 O 127.6 102.3 156.1 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7OA3 RELATED DB: PDB REMARK 900 CHILI RNA APTAMER IN COMPLEX WITH DMHBO+ (IRIDIUM HEXAMMINE CO- REMARK 900 CRYSTALLIZED FORM) DBREF 7OAX A 1 52 PDB 7OAX 7OAX 1 52 DBREF 7OAX B 1 52 PDB 7OAX 7OAX 1 52 DBREF 7OAX C 1 52 PDB 7OAX 7OAX 1 52 DBREF 7OAX D 1 52 PDB 7OAX 7OAX 1 52 SEQRES 1 A 52 G G C U A G C U G G A G G SEQRES 2 A 52 G G C G C C A G U U C G C SEQRES 3 A 52 U G G U G G U U G G G U G SEQRES 4 A 52 C G G U C G G C U A G C C SEQRES 1 B 52 G G C U A G C U G G A G G SEQRES 2 B 52 G G C G C C A G U U C G C SEQRES 3 B 52 U G G U G G U U G G G U G SEQRES 4 B 52 C G G U C G G C U A G C C SEQRES 1 C 52 G G C U A G C U G G A G G SEQRES 2 C 52 G G C G C C A G U U C G C SEQRES 3 C 52 U G G U G G U U G G G U G SEQRES 4 C 52 C G G U C G G C U A G C C SEQRES 1 D 52 G G C U A G C U G G A G G SEQRES 2 D 52 G G C G C C A G U U C G C SEQRES 3 D 52 U G G U G G U U G G G U G SEQRES 4 D 52 C G G U C G G C U A G C C HET GTP A 101 32 HET V5Z A 102 31 HET SPM A 103 14 HET GOL A 104 6 HET CL A 105 1 HET K A 106 1 HET K A 107 1 HET K A 108 1 HET GTP B 101 32 HET SPM B 102 14 HET V5Z B 103 31 HET CL B 104 1 HET K B 105 1 HET K B 106 1 HET K B 107 1 HET MG B 108 1 HET GTP C 101 32 HET SPM C 102 14 HET V5Z C 103 31 HET GOL C 104 6 HET K C 105 1 HET K C 106 1 HET K C 107 1 HET GTP D 101 32 HET SPM D 102 14 HET V5Z D 103 31 HET CL D 104 1 HET K D 105 1 HET K D 106 1 HET K D 107 1 HETNAM GTP GUANOSINE-5'-TRIPHOSPHATE HETNAM V5Z DMHBO+ HETNAM SPM SPERMINE HETNAM GOL GLYCEROL HETNAM CL CHLORIDE ION HETNAM K POTASSIUM ION HETNAM MG MAGNESIUM ION HETSYN V5Z [4-[(4Z)-4-[(3,5-DIMETHOXY-4-OXIDANYL-PHENYL) HETSYN 2 V5Z METHYLIDENE]-2-[(Z)-HYDROXYIMINOMETHYL]-5- HETSYN 3 V5Z OXIDANYLIDENE-IMIDAZOL-1-YL]PHENYL]-TRIMETHYL-AZANIUM HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 5 GTP 4(C10 H16 N5 O14 P3) FORMUL 6 V5Z 4(C22 H25 N4 O5 1+) FORMUL 7 SPM 4(C10 H26 N4) FORMUL 8 GOL 2(C3 H8 O3) FORMUL 9 CL 3(CL 1-) FORMUL 10 K 12(K 1+) FORMUL 20 MG MG 2+ FORMUL 35 HOH *37(H2 O) LINK P G A 2 O3' GTP A 101 1555 1555 1.56 LINK P G B 2 O3' GTP B 101 1555 1555 1.56 LINK P G C 2 O3' GTP C 101 1555 1555 1.56 LINK P G D 2 O3' GTP D 101 1555 1555 1.56 LINK O6 G A 9 K K A 106 1555 1555 2.72 LINK O6 G A 12 K K A 106 1555 1555 2.86 LINK O6 G A 13 K K A 106 1555 1555 2.98 LINK O6 G A 13 K K A 107 1555 1555 2.92 LINK O6 G A 15 K K A 107 1555 1555 2.95 LINK O6 G A 17 K K A 108 1555 1555 3.02 LINK O4 U A 30 K K A 108 1555 1555 3.48 LINK O6 G A 31 K K A 108 1555 1555 3.35 LINK O6 G A 32 K K A 106 1555 1555 2.71 LINK O6 G A 32 K K A 107 1555 1555 2.80 LINK O6 G A 36 K K A 106 1555 1555 2.78 LINK O6 G A 37 K K A 106 1555 1555 2.80 LINK O6 G A 37 K K A 107 1555 1555 2.81 LINK O6 G A 41 K K A 107 1555 1555 2.78 LINK O6 G A 42 K K A 106 1555 1555 2.60 LINK O28 V5Z A 102 K K A 107 1555 1555 2.82 LINK O31 V5Z A 102 K K A 107 1555 1555 2.76 LINK K K A 108 O HOH A 206 1555 1555 3.47 LINK O6 G B 9 K K B 105 1555 1555 2.70 LINK O6 G B 12 K K B 105 1555 1555 2.87 LINK O6 G B 13 K K B 105 1555 1555 2.84 LINK O6 G B 13 K K B 106 1555 1555 3.09 LINK O6 G B 15 K K B 106 1555 1555 2.87 LINK O6 G B 17 K K B 107 1555 1555 3.16 LINK O6 G B 29 K K B 107 1555 1555 3.35 LINK O4 U B 30 K K B 107 1555 1555 3.17 LINK O6 G B 31 K K B 107 1555 1555 3.34 LINK O6 G B 32 K K B 105 1555 1555 2.71 LINK O6 G B 32 K K B 106 1555 1555 2.90 LINK O6 G B 36 K K B 105 1555 1555 2.75 LINK O6 G B 37 K K B 105 1555 1555 2.75 LINK O6 G B 37 K K B 106 1555 1555 2.80 LINK O6 G B 41 K K B 105 1555 1555 3.35 LINK O6 G B 41 K K B 106 1555 1555 2.74 LINK O6 G B 42 K K B 105 1555 1555 2.61 LINK O28 V5Z B 103 K K B 106 1555 1555 2.96 LINK O31 V5Z B 103 K K B 106 1555 1555 2.75 LINK MG MG B 108 O3G GTP D 101 1555 2555 2.70 LINK O6 G C 9 K K C 105 1555 1555 2.74 LINK O6 G C 12 K K C 105 1555 1555 2.82 LINK O6 G C 13 K K C 105 1555 1555 2.87 LINK O6 G C 13 K K C 106 1555 1555 3.05 LINK O6 G C 15 K K C 106 1555 1555 2.86 LINK O6 G C 17 K K C 107 1555 1555 3.00 LINK O6 G C 29 K K C 107 1555 1555 3.48 LINK O4 U C 30 K K C 107 1555 1555 3.20 LINK O6 G C 31 K K C 107 1555 1555 3.17 LINK O6 G C 32 K K C 105 1555 1555 2.67 LINK O6 G C 32 K K C 106 1555 1555 2.98 LINK O6 G C 36 K K C 105 1555 1555 2.83 LINK O6 G C 37 K K C 105 1555 1555 2.75 LINK O6 G C 37 K K C 106 1555 1555 2.98 LINK O6 G C 41 K K C 105 1555 1555 3.26 LINK O6 G C 41 K K C 106 1555 1555 2.85 LINK O6 G C 42 K K C 105 1555 1555 2.61 LINK O28 V5Z C 103 K K C 106 1555 1555 3.04 LINK O31 V5Z C 103 K K C 106 1555 1555 2.68 LINK O6 G D 9 K K D 105 1555 1555 2.76 LINK O6 G D 12 K K D 105 1555 1555 2.91 LINK O6 G D 13 K K D 105 1555 1555 2.87 LINK O6 G D 13 K K D 106 1555 1555 2.98 LINK O6 G D 15 K K D 106 1555 1555 2.91 LINK O6 G D 17 K K D 107 1555 1555 3.14 LINK O4 U D 30 K K D 107 1555 1555 3.26 LINK O6 G D 31 K K D 107 1555 1555 3.41 LINK O6 G D 32 K K D 105 1555 1555 2.68 LINK O6 G D 32 K K D 106 1555 1555 2.85 LINK O6 G D 36 K K D 105 1555 1555 3.00 LINK O6 G D 37 K K D 105 1555 1555 2.74 LINK O6 G D 37 K K D 106 1555 1555 3.00 LINK O6 G D 41 K K D 106 1555 1555 2.78 LINK O6 G D 42 K K D 105 1555 1555 2.68 LINK O28 V5Z D 103 K K D 106 1555 1555 2.83 LINK O31 V5Z D 103 K K D 106 1555 1555 2.67 LINK K K D 107 O HOH D 213 1555 1555 2.95 CRYST1 59.324 100.352 113.294 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 0.016857 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009965 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008827 0.00000