HEADER RNA 11-NOV-22 8F4O TITLE APO STRUCTURE OF THE TPP RIBOSWITCH APTAMER DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: TPP RIBOSWITCH APTAMER DOMAIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 4 ORGANISM_TAXID: 562 KEYWDS RNA, RIBOSWITCH, APTAMER, THIAMINE PYROPHOSPHATE, TPP EXPDTA X-RAY DIFFRACTION AUTHOR H.-K.LEE,Y.-X.WANG,J.R.STAGNO REVDAT 4 25-OCT-23 8F4O 1 REMARK REVDAT 3 19-JUL-23 8F4O 1 JRNL REVDAT 2 21-JUN-23 8F4O 1 JRNL REVDAT 1 17-MAY-23 8F4O 0 JRNL AUTH H.K.LEE,Y.T.LEE,L.FAN,H.M.WILT,C.E.CONRAD,P.YU,J.ZHANG, JRNL AUTH 2 G.SHI,X.JI,Y.X.WANG,J.R.STAGNO JRNL TITL CRYSTAL STRUCTURE OF ESCHERICHIA COLI THIAMINE JRNL TITL 2 PYROPHOSPHATE-SENSING RIBOSWITCH IN THE APO STATE. JRNL REF STRUCTURE V. 31 848 2023 JRNL REFN ISSN 0969-2126 JRNL PMID 37253356 JRNL DOI 10.1016/J.STR.2023.05.003 REMARK 2 REMARK 2 RESOLUTION. 3.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487+SVN 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) : 3.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.58 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 3 NUMBER OF REFLECTIONS : 18652 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.284 REMARK 3 R VALUE (WORKING SET) : 0.282 REMARK 3 FREE R VALUE : 0.317 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.150 REMARK 3 FREE R VALUE TEST SET COUNT : 960 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 45.5800 - 5.9300 1.00 2597 169 0.2762 0.3268 REMARK 3 2 5.9200 - 4.7100 1.00 2625 114 0.2640 0.2744 REMARK 3 3 4.7100 - 4.1100 1.00 2607 153 0.2846 0.3180 REMARK 3 4 4.1100 - 3.7400 1.00 2605 140 0.2865 0.2832 REMARK 3 5 3.7400 - 3.4700 1.00 2600 134 0.2959 0.3612 REMARK 3 6 3.4700 - 3.2600 0.99 2587 148 0.3462 0.3776 REMARK 3 7 3.2600 - 3.1000 0.79 2071 102 0.3648 0.3526 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.492 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 40.316 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 142.1 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 143.1 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 : 0.004 3550 REMARK 3 ANGLE : 1.050 5702 REMARK 3 CHIRALITY : 0.091 692 REMARK 3 PLANARITY : 0.004 137 REMARK 3 DIHEDRAL : 21.147 1670 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 16 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 12:21) REMARK 3 ORIGIN FOR THE GROUP (A): -46.1559 15.2054 -8.0160 REMARK 3 T TENSOR REMARK 3 T11: 1.3141 T22: 0.4844 REMARK 3 T33: 1.1458 T12: -0.1008 REMARK 3 T13: 0.3191 T23: -0.3016 REMARK 3 L TENSOR REMARK 3 L11: 0.2532 L22: 1.9707 REMARK 3 L33: 2.1481 L12: -0.3643 REMARK 3 L13: -0.1504 L23: -1.4600 REMARK 3 S TENSOR REMARK 3 S11: -0.4561 S12: 0.0149 S13: -0.5570 REMARK 3 S21: -0.1172 S22: -0.1996 S23: -1.1353 REMARK 3 S31: 0.4588 S32: 0.3153 S33: -1.8188 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 22:27) REMARK 3 ORIGIN FOR THE GROUP (A): -26.1549 33.8562 5.5928 REMARK 3 T TENSOR REMARK 3 T11: 0.9796 T22: 1.3725 REMARK 3 T33: 1.9247 T12: -0.3424 REMARK 3 T13: -0.4128 T23: 0.8312 REMARK 3 L TENSOR REMARK 3 L11: 0.3696 L22: 0.6811 REMARK 3 L33: 1.4963 L12: -0.4179 REMARK 3 L13: 0.0888 L23: 0.4394 REMARK 3 S TENSOR REMARK 3 S11: 0.2117 S12: -0.0464 S13: 0.2236 REMARK 3 S21: -0.1259 S22: 0.1722 S23: -0.0135 REMARK 3 S31: -0.4793 S32: -0.0437 S33: 0.2865 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 32:41) REMARK 3 ORIGIN FOR THE GROUP (A): -35.5527 28.5710 3.3262 REMARK 3 T TENSOR REMARK 3 T11: 0.8714 T22: 0.5944 REMARK 3 T33: 1.0277 T12: 0.1141 REMARK 3 T13: 0.0029 T23: 0.2952 REMARK 3 L TENSOR REMARK 3 L11: 0.0435 L22: 1.9941 REMARK 3 L33: 2.7539 L12: 0.3047 REMARK 3 L13: 0.3741 L23: 2.3520 REMARK 3 S TENSOR REMARK 3 S11: -0.5422 S12: -0.0318 S13: -0.0760 REMARK 3 S21: 0.3559 S22: -0.5599 S23: 0.1263 REMARK 3 S31: -0.2700 S32: 0.1536 S33: -0.6647 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 42:51) REMARK 3 ORIGIN FOR THE GROUP (A): -44.8951 18.4290 -3.2941 REMARK 3 T TENSOR REMARK 3 T11: 1.0794 T22: -0.0233 REMARK 3 T33: 0.9679 T12: -0.1368 REMARK 3 T13: 0.2790 T23: -0.9986 REMARK 3 L TENSOR REMARK 3 L11: 1.4589 L22: 2.3761 REMARK 3 L33: 0.0374 L12: 0.6132 REMARK 3 L13: -0.1503 L23: -0.2114 REMARK 3 S TENSOR REMARK 3 S11: -0.8464 S12: 0.5464 S13: -1.0542 REMARK 3 S21: -0.0617 S22: 0.4773 S23: -0.6496 REMARK 3 S31: -0.1710 S32: -0.1478 S33: -1.0823 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 52:63) REMARK 3 ORIGIN FOR THE GROUP (A): -47.9449 30.8521 -19.9259 REMARK 3 T TENSOR REMARK 3 T11: 0.8279 T22: 1.3767 REMARK 3 T33: 0.6464 T12: 0.6496 REMARK 3 T13: 0.2547 T23: -0.1929 REMARK 3 L TENSOR REMARK 3 L11: 0.3487 L22: 0.5923 REMARK 3 L33: 0.0585 L12: -0.4717 REMARK 3 L13: 0.1613 L23: -0.2090 REMARK 3 S TENSOR REMARK 3 S11: 0.3252 S12: 0.8781 S13: -0.4404 REMARK 3 S21: -0.5129 S22: -0.2262 S23: 0.0220 REMARK 3 S31: 0.0488 S32: -0.2635 S33: 2.5860 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN A AND RESID 64:79) REMARK 3 ORIGIN FOR THE GROUP (A): -56.8137 54.6984 -19.8689 REMARK 3 T TENSOR REMARK 3 T11: 0.5556 T22: 1.6278 REMARK 3 T33: 0.4415 T12: 0.1932 REMARK 3 T13: -0.0409 T23: 0.1348 REMARK 3 L TENSOR REMARK 3 L11: 0.2646 L22: 2.7781 REMARK 3 L33: 0.6523 L12: 0.8738 REMARK 3 L13: -0.3972 L23: -0.8774 REMARK 3 S TENSOR REMARK 3 S11: 0.6928 S12: 0.3500 S13: 0.1135 REMARK 3 S21: 0.1690 S22: -1.2101 S23: 0.2008 REMARK 3 S31: -0.5302 S32: -0.1629 S33: -0.1364 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN A AND RESID 80:84) REMARK 3 ORIGIN FOR THE GROUP (A): -51.8828 22.8134 -23.9568 REMARK 3 T TENSOR REMARK 3 T11: 1.6655 T22: 2.7897 REMARK 3 T33: 1.4491 T12: 0.2229 REMARK 3 T13: 0.2786 T23: -0.9057 REMARK 3 L TENSOR REMARK 3 L11: 0.4393 L22: 0.3219 REMARK 3 L33: 0.7226 L12: 0.2958 REMARK 3 L13: -0.3204 L23: 0.0243 REMARK 3 S TENSOR REMARK 3 S11: -0.0419 S12: -0.0029 S13: -0.0873 REMARK 3 S21: -0.3714 S22: -0.5194 S23: 0.2046 REMARK 3 S31: 0.0629 S32: -0.1250 S33: -1.0520 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN A AND RESID 85:90) REMARK 3 ORIGIN FOR THE GROUP (A): -63.1946 3.1120 -9.1366 REMARK 3 T TENSOR REMARK 3 T11: 4.1602 T22: 2.1321 REMARK 3 T33: 1.4442 T12: 0.3138 REMARK 3 T13: 0.1062 T23: -0.1146 REMARK 3 L TENSOR REMARK 3 L11: 0.0096 L22: 0.0282 REMARK 3 L33: 0.0630 L12: -0.0112 REMARK 3 L13: 0.0175 L23: -0.0522 REMARK 3 S TENSOR REMARK 3 S11: -0.2114 S12: -0.0254 S13: -0.1223 REMARK 3 S21: 0.2938 S22: 0.3959 S23: -0.7049 REMARK 3 S31: -0.2957 S32: 0.1538 S33: 0.0001 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: (CHAIN B AND RESID 9:13) REMARK 3 ORIGIN FOR THE GROUP (A): -21.7032 56.1056 -22.7454 REMARK 3 T TENSOR REMARK 3 T11: 2.6911 T22: 2.5729 REMARK 3 T33: 1.5793 T12: -0.6555 REMARK 3 T13: -0.1919 T23: 0.3917 REMARK 3 L TENSOR REMARK 3 L11: 0.4542 L22: 1.3304 REMARK 3 L33: 0.1088 L12: 0.0513 REMARK 3 L13: 0.0247 L23: 0.3854 REMARK 3 S TENSOR REMARK 3 S11: 0.0293 S12: 0.3149 S13: -0.7012 REMARK 3 S21: -0.5700 S22: 0.5751 S23: -1.1817 REMARK 3 S31: 0.0934 S32: 0.4757 S33: 0.0456 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: (CHAIN B AND RESID 14:20) REMARK 3 ORIGIN FOR THE GROUP (A): -24.0645 41.1732 -14.3753 REMARK 3 T TENSOR REMARK 3 T11: 0.8587 T22: 1.0422 REMARK 3 T33: 1.0980 T12: 0.0140 REMARK 3 T13: -0.3663 T23: 0.0699 REMARK 3 L TENSOR REMARK 3 L11: 0.6617 L22: 0.0331 REMARK 3 L33: 0.5600 L12: -0.1566 REMARK 3 L13: -0.6185 L23: 0.1638 REMARK 3 S TENSOR REMARK 3 S11: -0.7439 S12: 0.3396 S13: -0.4541 REMARK 3 S21: 0.4909 S22: 0.1805 S23: -0.9348 REMARK 3 S31: -0.3626 S32: -0.3245 S33: -0.1084 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: (CHAIN B AND RESID 21:39) REMARK 3 ORIGIN FOR THE GROUP (A): -27.0098 21.9915 -31.4104 REMARK 3 T TENSOR REMARK 3 T11: 1.6894 T22: 1.5927 REMARK 3 T33: 0.7641 T12: 0.2545 REMARK 3 T13: 0.5391 T23: -0.2083 REMARK 3 L TENSOR REMARK 3 L11: 0.1058 L22: 0.0039 REMARK 3 L33: 0.0186 L12: -0.0213 REMARK 3 L13: 0.0489 L23: -0.0059 REMARK 3 S TENSOR REMARK 3 S11: 0.0220 S12: 0.6378 S13: -0.1742 REMARK 3 S21: -0.3111 S22: -0.0207 S23: -0.2361 REMARK 3 S31: 0.0317 S32: 0.3195 S33: 0.1696 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: (CHAIN B AND RESID 40:52) REMARK 3 ORIGIN FOR THE GROUP (A): -25.7150 39.2176 -22.4339 REMARK 3 T TENSOR REMARK 3 T11: 0.7741 T22: 1.5450 REMARK 3 T33: 1.1282 T12: -0.1195 REMARK 3 T13: -0.2338 T23: 0.1329 REMARK 3 L TENSOR REMARK 3 L11: 0.1596 L22: 0.0221 REMARK 3 L33: 0.3348 L12: -0.0038 REMARK 3 L13: -0.2411 L23: -0.0208 REMARK 3 S TENSOR REMARK 3 S11: -0.7989 S12: 0.8760 S13: 0.2107 REMARK 3 S21: 0.2825 S22: -0.5987 S23: 0.4026 REMARK 3 S31: -0.1680 S32: 0.5000 S33: -0.0375 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: (CHAIN B AND RESID 53:64) REMARK 3 ORIGIN FOR THE GROUP (A): -44.5552 40.6264 -17.6927 REMARK 3 T TENSOR REMARK 3 T11: 0.7084 T22: 0.9430 REMARK 3 T33: 1.0212 T12: -0.0876 REMARK 3 T13: 0.0477 T23: -0.0987 REMARK 3 L TENSOR REMARK 3 L11: 0.2308 L22: 0.9095 REMARK 3 L33: 0.1929 L12: -0.2036 REMARK 3 L13: 0.1889 L23: -0.3171 REMARK 3 S TENSOR REMARK 3 S11: -0.6699 S12: -0.3041 S13: 0.5779 REMARK 3 S21: 0.7098 S22: -0.0108 S23: -0.3334 REMARK 3 S31: 0.0402 S32: -0.1862 S33: -0.0559 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: (CHAIN B AND RESID 65:76) REMARK 3 ORIGIN FOR THE GROUP (A): -64.9720 38.8930 -32.9345 REMARK 3 T TENSOR REMARK 3 T11: 1.3415 T22: 1.9665 REMARK 3 T33: 1.2857 T12: 0.2897 REMARK 3 T13: -0.1971 T23: -0.5793 REMARK 3 L TENSOR REMARK 3 L11: 0.0796 L22: 0.0984 REMARK 3 L33: 0.0628 L12: 0.0622 REMARK 3 L13: 0.0298 L23: -0.0365 REMARK 3 S TENSOR REMARK 3 S11: -0.2546 S12: 0.2062 S13: -0.4296 REMARK 3 S21: -0.7870 S22: 0.0388 S23: -0.6255 REMARK 3 S31: -0.1592 S32: -0.8028 S33: -0.0010 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: (CHAIN B AND RESID 77:83) REMARK 3 ORIGIN FOR THE GROUP (A): -48.9951 45.0429 -14.5014 REMARK 3 T TENSOR REMARK 3 T11: 0.8323 T22: 0.8491 REMARK 3 T33: 0.5541 T12: 0.2370 REMARK 3 T13: -0.2260 T23: 0.1019 REMARK 3 L TENSOR REMARK 3 L11: 2.7719 L22: 2.9493 REMARK 3 L33: 5.3077 L12: -1.7381 REMARK 3 L13: 1.1341 L23: 0.5277 REMARK 3 S TENSOR REMARK 3 S11: -0.3712 S12: 0.2097 S13: 0.7221 REMARK 3 S21: 0.2022 S22: -0.5494 S23: -0.3802 REMARK 3 S31: -0.8706 S32: -1.0660 S33: -1.7252 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: (CHAIN B AND RESID 84:89) REMARK 3 ORIGIN FOR THE GROUP (A): -20.7144 56.5421 -14.0029 REMARK 3 T TENSOR REMARK 3 T11: 1.3372 T22: 0.9872 REMARK 3 T33: 0.8517 T12: -0.0917 REMARK 3 T13: -0.4932 T23: 0.1087 REMARK 3 L TENSOR REMARK 3 L11: 1.7533 L22: 2.3928 REMARK 3 L33: 1.1464 L12: -2.0527 REMARK 3 L13: -1.4109 L23: 1.6543 REMARK 3 S TENSOR REMARK 3 S11: -0.4296 S12: 0.0244 S13: -0.3767 REMARK 3 S21: 0.7167 S22: 0.2931 S23: 0.4083 REMARK 3 S31: 0.7659 S32: 0.5356 S33: -0.6627 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 8F4O COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-NOV-22. REMARK 100 THE DEPOSITION ID IS D_1000269964. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-OCT-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.103025 REMARK 200 MONOCHROMATOR : NULL 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 : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19251 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.100 REMARK 200 RESOLUTION RANGE LOW (A) : 48.950 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 14.90 REMARK 200 R MERGE (I) : 0.11500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.31 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 8.20 REMARK 200 R MERGE FOR SHELL (I) : 2.86800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4NYG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.56 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS-BICINE, PH 8.3, 12.5% MPD, REMARK 280 12.5% PEG 3350, 12.5% PEG 1000, 0.12 M ETHYLENE GLYCOL MIXTURE, REMARK 280 VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 65.27000 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 32.63500 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 48.95250 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 16.31750 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 81.58750 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 65.27000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 32.63500 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 16.31750 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 48.95250 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 81.58750 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 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 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 9 REMARK 465 C A 10 REMARK 465 G A 11 REMARK 465 U A 28 REMARK 465 G A 29 REMARK 465 C A 30 REMARK 465 G A 31 REMARK 465 A A 53 REMARK 465 U A 54 REMARK 465 C A 55 REMARK 465 A A 91 REMARK 465 C B 22 REMARK 465 C B 23 REMARK 465 C B 24 REMARK 465 U B 25 REMARK 465 U B 26 REMARK 465 C B 27 REMARK 465 U B 28 REMARK 465 G B 29 REMARK 465 C B 30 REMARK 465 G B 31 REMARK 465 U B 32 REMARK 465 G B 33 REMARK 465 U B 68 REMARK 465 A B 69 REMARK 465 A B 70 REMARK 465 U B 71 REMARK 465 C B 90 REMARK 465 A B 91 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 U A 32 P OP1 OP2 N1 C2 O2 N3 REMARK 470 U A 32 C4 O4 C5 C6 REMARK 470 U A 52 N1 C2 O2 N3 C4 O4 C5 REMARK 470 U A 52 C6 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 U A 71 N1 C2 O2 N3 C4 O4 C5 REMARK 480 U A 71 C6 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 H61 A A 41 HN52 IRI A 116 1.13 REMARK 500 O6 G B 42 HN22 IRI B 106 1.39 REMARK 500 O6 G A 82 HN62 IRI A 112 1.41 REMARK 500 OP2 A A 75 HN52 IRI A 103 1.45 REMARK 500 OP2 A A 43 HN41 IRI A 107 1.48 REMARK 500 O6 G A 40 HN42 IRI A 107 1.58 REMARK 500 H1 G A 40 OP2 A A 43 1.60 REMARK 500 O6 G B 65 H42 C B 74 1.60 REMARK 500 O6 G A 37 N3 IRI A 113 2.02 REMARK 500 O2' G A 21 N2 IRI A 115 2.13 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 G A 21 O3' - P - OP2 ANGL. DEV. = -24.3 DEGREES REMARK 500 G A 21 O3' - P - OP1 ANGL. DEV. = -19.2 DEGREES REMARK 500 G A 21 OP1 - P - OP2 ANGL. DEV. = 10.7 DEGREES REMARK 500 C A 77 N1 - C2 - O2 ANGL. DEV. = 3.7 DEGREES REMARK 500 C A 77 N3 - C2 - O2 ANGL. DEV. = -4.4 DEGREES REMARK 500 A A 80 O4' - C1' - N9 ANGL. DEV. = 6.5 DEGREES REMARK 500 C B 74 C6 - N1 - C2 ANGL. DEV. = -3.4 DEGREES REMARK 500 C B 74 C5 - C6 - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 C B 74 C2 - N1 - C1' ANGL. DEV. = 6.9 DEGREES REMARK 500 REMARK 500 REMARK: NULL DBREF1 8F4O A 10 88 GB CP026935.2 DBREF2 8F4O A 1845826323 1875216 1875294 DBREF1 8F4O B 10 88 GB CP026935.2 DBREF2 8F4O B 1845826323 1875216 1875294 SEQADV 8F4O G A 9 GB 184582632 INSERTION SEQADV 8F4O G A 89 GB 184582632 INSERTION SEQADV 8F4O C A 90 GB 184582632 INSERTION SEQADV 8F4O A A 91 GB 184582632 INSERTION SEQADV 8F4O G B 9 GB 184582632 INSERTION SEQADV 8F4O G B 89 GB 184582632 INSERTION SEQADV 8F4O C B 90 GB 184582632 INSERTION SEQADV 8F4O A B 91 GB 184582632 INSERTION SEQRES 1 A 83 G C G A C U C G G G G U G SEQRES 2 A 83 C C C U U C U G C G U G A SEQRES 3 A 83 A G G C U G A G A A A U A SEQRES 4 A 83 C C C G U A U C A C C U G SEQRES 5 A 83 A U C U G G A U A A U G C SEQRES 6 A 83 C A G C G U A G G G A A G SEQRES 7 A 83 U C G C A SEQRES 1 B 83 G C G A C U C G G G G U G SEQRES 2 B 83 C C C U U C U G C G U G A SEQRES 3 B 83 A G G C U G A G A A A U A SEQRES 4 B 83 C C C G U A U C A C C U G SEQRES 5 B 83 A U C U G G A U A A U G C SEQRES 6 B 83 C A G C G U A G G G A A G SEQRES 7 B 83 U C G C A HET IRI A 101 75 HET IRI A 102 25 HET IRI A 103 50 HET IRI A 104 50 HET IRI A 105 25 HET IRI A 106 25 HET IRI A 107 25 HET IRI A 108 25 HET IRI A 109 25 HET IRI A 110 25 HET IRI A 111 25 HET IRI A 112 50 HET IRI A 113 25 HET IRI A 114 25 HET IRI A 115 25 HET IRI A 116 25 HET IRI A 117 25 HET PGE A 118 24 HET IRI B 101 25 HET IRI B 102 50 HET IRI B 103 25 HET IRI B 104 25 HET IRI B 105 25 HET IRI B 106 25 HET IRI B 107 25 HET IRI B 108 25 HET IRI B 109 25 HET IRI B 110 25 HET IRI B 111 25 HET PGE B 112 24 HET PG4 B 113 31 HETNAM IRI IRIDIUM HEXAMMINE ION HETNAM PGE TRIETHYLENE GLYCOL HETNAM PG4 TETRAETHYLENE GLYCOL FORMUL 3 IRI 28(H18 IR N6 3+) FORMUL 20 PGE 2(C6 H14 O4) FORMUL 33 PG4 C8 H18 O5 CRYST1 139.264 139.264 97.905 90.00 90.00 120.00 P 65 2 2 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 0.007181 0.004146 0.000000 0.00000 SCALE2 0.000000 0.008291 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010214 0.00000