HEADER TRANSFERASE 11-DEC-23 8XDP TITLE O-METHYLTRANSFERASE FROM LYCORIS LONGITUBA COMPLEXED WITH MG, SAH, AND TITLE 2 3,4-DIHYDROXYBENZALDEHYDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NORBELLADINE O-METHYLTRANSFERASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LYCORIS LONGITUBA; SOURCE 3 ORGANISM_TAXID: 272140; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI M15; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 1007065 KEYWDS O-METHYLTRANSFERASE FAMILY PROTEIN, LLOMT, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.Y.H.SAW,Y.NAKASHIMA,H.MORITA REVDAT 1 07-AUG-24 8XDP 0 JRNL AUTH S.Y.Y.HNIN,Y.NAKASHIMA,T.KODAMA,H.MORITA JRNL TITL STRUCTURE-BASED CATALYTIC MECHANISM OF AMARYLLIDACEAE JRNL TITL 2 O-METHYLTRANSFERASES JRNL REF ACS CATALYSIS 11865 2024 JRNL REFN ESSN 2155-5435 JRNL DOI 10.1021/ACSCATAL.4C03305 REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1_3660 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) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.90 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.910 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 93813 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.159 REMARK 3 R VALUE (WORKING SET) : 0.158 REMARK 3 FREE R VALUE : 0.189 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.040 REMARK 3 FREE R VALUE TEST SET COUNT : 4726 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 47.9000 - 5.4400 1.00 2966 157 0.1655 0.1943 REMARK 3 2 5.4300 - 4.3200 1.00 2986 139 0.1293 0.1704 REMARK 3 3 4.3100 - 3.7700 1.00 2940 184 0.1203 0.1192 REMARK 3 4 3.7700 - 3.4300 1.00 3026 141 0.1338 0.1468 REMARK 3 5 3.4300 - 3.1800 1.00 2899 198 0.1405 0.1889 REMARK 3 6 3.1800 - 2.9900 1.00 2974 150 0.1525 0.1850 REMARK 3 7 2.9900 - 2.8400 1.00 2987 143 0.1590 0.1939 REMARK 3 8 2.8400 - 2.7200 1.00 2944 166 0.1626 0.1803 REMARK 3 9 2.7200 - 2.6100 1.00 2976 132 0.1539 0.1938 REMARK 3 10 2.6100 - 2.5200 1.00 3009 158 0.1500 0.2310 REMARK 3 11 2.5200 - 2.4400 1.00 2974 166 0.1582 0.1782 REMARK 3 12 2.4400 - 2.3800 1.00 2951 155 0.1544 0.1839 REMARK 3 13 2.3800 - 2.3100 1.00 3012 163 0.1523 0.1806 REMARK 3 14 2.3100 - 2.2600 1.00 2914 166 0.1481 0.1776 REMARK 3 15 2.2600 - 2.2000 1.00 2978 134 0.1625 0.2026 REMARK 3 16 2.2000 - 2.1600 1.00 2957 165 0.1627 0.1874 REMARK 3 17 2.1600 - 2.1100 1.00 2958 190 0.1624 0.2056 REMARK 3 18 2.1100 - 2.0700 1.00 2899 150 0.1652 0.1792 REMARK 3 19 2.0700 - 2.0400 1.00 3038 153 0.1659 0.2320 REMARK 3 20 2.0400 - 2.0000 1.00 2986 150 0.1751 0.2045 REMARK 3 21 2.0000 - 1.9700 1.00 2956 149 0.1910 0.2332 REMARK 3 22 1.9700 - 1.9400 1.00 2932 171 0.1934 0.2487 REMARK 3 23 1.9400 - 1.9100 1.00 2968 167 0.2033 0.2529 REMARK 3 24 1.9100 - 1.8900 1.00 2984 167 0.2222 0.2851 REMARK 3 25 1.8900 - 1.8600 1.00 2953 155 0.2214 0.2520 REMARK 3 26 1.8600 - 1.8400 1.00 2974 156 0.2243 0.3032 REMARK 3 27 1.8400 - 1.8100 1.00 3018 125 0.2378 0.2637 REMARK 3 28 1.8100 - 1.7900 1.00 2975 134 0.2389 0.2530 REMARK 3 29 1.7900 - 1.7700 1.00 2906 162 0.2577 0.3149 REMARK 3 30 1.7700 - 1.7500 1.00 3047 180 0.2607 0.2965 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) : 0.169 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.354 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.53 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.98 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 4175 REMARK 3 ANGLE : 0.761 5699 REMARK 3 CHIRALITY : 0.049 633 REMARK 3 PLANARITY : 0.004 741 REMARK 3 DIHEDRAL : 17.888 1556 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 14 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID -2 THROUGH 18 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.9038 -3.9529 14.5474 REMARK 3 T TENSOR REMARK 3 T11: 0.2797 T22: 0.2326 REMARK 3 T33: 0.3006 T12: -0.0071 REMARK 3 T13: 0.0138 T23: 0.0011 REMARK 3 L TENSOR REMARK 3 L11: 0.1574 L22: 0.2113 REMARK 3 L33: 0.0461 L12: -0.3097 REMARK 3 L13: -0.0289 L23: 0.0024 REMARK 3 S TENSOR REMARK 3 S11: 0.0996 S12: -0.0151 S13: -0.0819 REMARK 3 S21: -0.0796 S22: -0.0605 S23: -0.1053 REMARK 3 S31: 0.0032 S32: -0.1407 S33: 0.0001 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 19 THROUGH 35 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.0546 9.7008 32.2697 REMARK 3 T TENSOR REMARK 3 T11: 0.1702 T22: 0.1932 REMARK 3 T33: 0.2018 T12: -0.0098 REMARK 3 T13: -0.0044 T23: 0.0084 REMARK 3 L TENSOR REMARK 3 L11: 0.0389 L22: 0.0553 REMARK 3 L33: 0.1226 L12: -0.0364 REMARK 3 L13: -0.0281 L23: 0.0042 REMARK 3 S TENSOR REMARK 3 S11: 0.0362 S12: -0.0055 S13: -0.1153 REMARK 3 S21: -0.0865 S22: 0.0224 S23: 0.2245 REMARK 3 S31: 0.0100 S32: -0.1741 S33: 0.0000 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 36 THROUGH 56 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.0327 11.1575 17.5824 REMARK 3 T TENSOR REMARK 3 T11: 0.2006 T22: 0.2587 REMARK 3 T33: 0.2374 T12: -0.0034 REMARK 3 T13: -0.0030 T23: -0.0139 REMARK 3 L TENSOR REMARK 3 L11: 0.0127 L22: 0.0579 REMARK 3 L33: 0.2255 L12: 0.0348 REMARK 3 L13: 0.0636 L23: -0.0723 REMARK 3 S TENSOR REMARK 3 S11: -0.0522 S12: 0.1296 S13: -0.1044 REMARK 3 S21: 0.0163 S22: -0.0073 S23: 0.2913 REMARK 3 S31: 0.0614 S32: -0.3203 S33: 0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 57 THROUGH 78 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.1826 20.3869 21.3625 REMARK 3 T TENSOR REMARK 3 T11: 0.2265 T22: 0.2062 REMARK 3 T33: 0.1938 T12: -0.0041 REMARK 3 T13: 0.0094 T23: -0.0221 REMARK 3 L TENSOR REMARK 3 L11: 0.1097 L22: 0.0678 REMARK 3 L33: 0.1072 L12: -0.1007 REMARK 3 L13: 0.0449 L23: -0.0507 REMARK 3 S TENSOR REMARK 3 S11: -0.0315 S12: 0.0170 S13: -0.0334 REMARK 3 S21: -0.0203 S22: 0.0149 S23: -0.1251 REMARK 3 S31: -0.1215 S32: -0.0106 S33: 0.0000 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 79 THROUGH 118 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.9915 20.7429 12.6115 REMARK 3 T TENSOR REMARK 3 T11: 0.2295 T22: 0.2042 REMARK 3 T33: 0.1965 T12: 0.0041 REMARK 3 T13: -0.0078 T23: -0.0018 REMARK 3 L TENSOR REMARK 3 L11: 0.1358 L22: 0.1039 REMARK 3 L33: 0.3056 L12: 0.0063 REMARK 3 L13: -0.0967 L23: -0.0960 REMARK 3 S TENSOR REMARK 3 S11: 0.0056 S12: 0.0119 S13: 0.0854 REMARK 3 S21: -0.1312 S22: 0.0440 S23: -0.0321 REMARK 3 S31: -0.1870 S32: -0.0859 S33: 0.0000 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 119 THROUGH 142 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.6003 21.7477 4.1799 REMARK 3 T TENSOR REMARK 3 T11: 0.2967 T22: 0.2639 REMARK 3 T33: 0.1896 T12: -0.0171 REMARK 3 T13: 0.0376 T23: 0.0133 REMARK 3 L TENSOR REMARK 3 L11: 0.1745 L22: 0.2153 REMARK 3 L33: 0.2112 L12: 0.1188 REMARK 3 L13: 0.0425 L23: -0.1348 REMARK 3 S TENSOR REMARK 3 S11: 0.0484 S12: 0.2585 S13: 0.1351 REMARK 3 S21: -0.2852 S22: 0.0099 S23: 0.1011 REMARK 3 S31: -0.2940 S32: -0.0630 S33: -0.0171 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 143 THROUGH 157 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.9488 21.2798 10.3455 REMARK 3 T TENSOR REMARK 3 T11: 0.3455 T22: 0.2555 REMARK 3 T33: 0.2417 T12: -0.0728 REMARK 3 T13: 0.0625 T23: 0.0236 REMARK 3 L TENSOR REMARK 3 L11: 0.1495 L22: 0.0111 REMARK 3 L33: 0.1348 L12: -0.0670 REMARK 3 L13: 0.0992 L23: -0.0255 REMARK 3 S TENSOR REMARK 3 S11: -0.1533 S12: 0.2233 S13: 0.1500 REMARK 3 S21: -0.5501 S22: 0.0131 S23: -0.2505 REMARK 3 S31: -0.2274 S32: 0.1048 S33: -0.0026 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 158 THROUGH 184 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.1677 11.9730 11.2675 REMARK 3 T TENSOR REMARK 3 T11: 0.2144 T22: 0.2305 REMARK 3 T33: 0.2107 T12: -0.0314 REMARK 3 T13: 0.0475 T23: -0.0158 REMARK 3 L TENSOR REMARK 3 L11: 0.1936 L22: 0.0494 REMARK 3 L33: 0.1427 L12: -0.0911 REMARK 3 L13: 0.1109 L23: -0.0546 REMARK 3 S TENSOR REMARK 3 S11: -0.0175 S12: 0.1107 S13: -0.0653 REMARK 3 S21: -0.0010 S22: 0.0094 S23: -0.1581 REMARK 3 S31: 0.0031 S32: 0.1344 S33: 0.0000 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 185 THROUGH 217 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.0057 -4.3352 13.6516 REMARK 3 T TENSOR REMARK 3 T11: 0.2737 T22: 0.2257 REMARK 3 T33: 0.2972 T12: -0.0151 REMARK 3 T13: 0.0484 T23: -0.0603 REMARK 3 L TENSOR REMARK 3 L11: 0.0936 L22: 0.1909 REMARK 3 L33: 0.0728 L12: 0.0181 REMARK 3 L13: 0.0566 L23: -0.1840 REMARK 3 S TENSOR REMARK 3 S11: 0.0134 S12: 0.1373 S13: -0.4324 REMARK 3 S21: -0.2224 S22: -0.0050 S23: -0.2201 REMARK 3 S31: 0.1432 S32: 0.0524 S33: -0.0031 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 218 THROUGH 239 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.7913 10.9678 19.3307 REMARK 3 T TENSOR REMARK 3 T11: 0.1723 T22: 0.1985 REMARK 3 T33: 0.2051 T12: -0.0268 REMARK 3 T13: 0.0306 T23: -0.0230 REMARK 3 L TENSOR REMARK 3 L11: 0.0743 L22: 0.1036 REMARK 3 L33: 0.1115 L12: -0.1262 REMARK 3 L13: -0.0343 L23: -0.0541 REMARK 3 S TENSOR REMARK 3 S11: -0.0417 S12: -0.0260 S13: -0.1369 REMARK 3 S21: 0.0476 S22: -0.0551 S23: -0.1983 REMARK 3 S31: 0.0205 S32: 0.1155 S33: 0.0001 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID -2 THROUGH 18 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.6929 -5.1609 45.7917 REMARK 3 T TENSOR REMARK 3 T11: 0.3973 T22: 0.4386 REMARK 3 T33: 0.4159 T12: 0.0676 REMARK 3 T13: 0.0095 T23: 0.0948 REMARK 3 L TENSOR REMARK 3 L11: -0.0388 L22: 0.0512 REMARK 3 L33: 0.0406 L12: 0.1090 REMARK 3 L13: -0.0165 L23: -0.1033 REMARK 3 S TENSOR REMARK 3 S11: 0.0073 S12: -0.2290 S13: -0.2712 REMARK 3 S21: 0.0843 S22: 0.1905 S23: 0.1532 REMARK 3 S31: 0.2755 S32: 0.3467 S33: -0.0005 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 19 THROUGH 56 ) REMARK 3 ORIGIN FOR THE GROUP (A): 22.5738 -0.0085 34.3745 REMARK 3 T TENSOR REMARK 3 T11: 0.2134 T22: 0.2051 REMARK 3 T33: 0.2746 T12: 0.0179 REMARK 3 T13: -0.0061 T23: -0.0012 REMARK 3 L TENSOR REMARK 3 L11: 0.0302 L22: 0.1828 REMARK 3 L33: 0.2257 L12: -0.0196 REMARK 3 L13: 0.0607 L23: 0.2212 REMARK 3 S TENSOR REMARK 3 S11: -0.0094 S12: 0.0497 S13: -0.1389 REMARK 3 S21: 0.0153 S22: 0.0089 S23: -0.0824 REMARK 3 S31: 0.1960 S32: 0.1590 S33: 0.0000 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 57 THROUGH 171 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.8467 17.9691 42.4089 REMARK 3 T TENSOR REMARK 3 T11: 0.1947 T22: 0.1986 REMARK 3 T33: 0.2161 T12: -0.0223 REMARK 3 T13: -0.0110 T23: -0.0185 REMARK 3 L TENSOR REMARK 3 L11: 0.9187 L22: 0.3294 REMARK 3 L33: 0.7271 L12: -0.2347 REMARK 3 L13: 0.0445 L23: -0.0208 REMARK 3 S TENSOR REMARK 3 S11: 0.0127 S12: -0.0882 S13: 0.0699 REMARK 3 S21: 0.0371 S22: 0.0107 S23: -0.1520 REMARK 3 S31: -0.1217 S32: 0.1299 S33: 0.0000 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 172 THROUGH 239 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.8415 11.9933 41.1930 REMARK 3 T TENSOR REMARK 3 T11: 0.1878 T22: 0.1799 REMARK 3 T33: 0.1754 T12: 0.0036 REMARK 3 T13: 0.0152 T23: 0.0061 REMARK 3 L TENSOR REMARK 3 L11: 0.2853 L22: 0.2722 REMARK 3 L33: 0.4003 L12: 0.1088 REMARK 3 L13: 0.2823 L23: 0.1636 REMARK 3 S TENSOR REMARK 3 S11: -0.0001 S12: -0.0790 S13: -0.0413 REMARK 3 S21: 0.0500 S22: 0.0213 S23: -0.0033 REMARK 3 S31: 0.0313 S32: -0.0572 S33: 0.0000 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 8XDP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 14-DEC-23. REMARK 100 THE DEPOSITION ID IS D_1300043256. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-DEC-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-1A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.04500 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 4M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 93813 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 47.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.50 REMARK 200 R MERGE (I) : 0.10800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.78 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 14.10 REMARK 200 R MERGE FOR SHELL (I) : 1.36600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.76 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 21% (W/V) PEG 8000, 0.2M MGCL2, 0.1M REMARK 280 TRIS-HCL (PH 8.0), VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 X,-Y,-Z REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 -X,-Y+1/2,Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.71050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 59.22700 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.71050 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 59.22700 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4430 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.0 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 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 GLU A 19 CD OE1 OE2 REMARK 470 GLU A 36 CD OE1 OE2 REMARK 470 LYS A 73 CD CE NZ REMARK 470 LYS A 118 CD CE NZ REMARK 470 LYS A 144 CG CD CE NZ REMARK 470 GLU B 36 CD OE1 OE2 REMARK 470 LYS B 73 CD CE NZ REMARK 470 LYS B 144 CG CD CE NZ REMARK 470 GLU B 145 CG CD OE1 OE2 REMARK 470 GLU B 146 CG CD OE1 OE2 REMARK 470 GLU B 193 CD OE1 OE2 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 O HOH B 672 O HOH B 738 2.12 REMARK 500 O HOH B 647 O HOH B 788 2.12 REMARK 500 O HOH B 660 O HOH B 759 2.14 REMARK 500 O HOH B 611 O HOH B 634 2.19 REMARK 500 O HOH B 713 O HOH B 784 2.19 REMARK 500 O4 H6N B 501 O HOH B 601 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 823 O HOH B 799 3545 2.14 REMARK 500 O HOH A 906 O HOH B 799 3545 2.17 REMARK 500 O HOH B 603 O HOH B 738 2556 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 LYS A 73 -31.20 -130.07 REMARK 500 LYS A 73 -30.30 -130.23 REMARK 500 TYR A 81 -132.30 56.60 REMARK 500 ASP A 155 29.90 -149.38 REMARK 500 ALA A 156 -122.78 -103.01 REMARK 500 TRP A 185 63.49 38.76 REMARK 500 TYR B 81 -129.23 53.48 REMARK 500 ASP B 155 36.39 -151.99 REMARK 500 ALA B 156 -130.26 -109.96 REMARK 500 TRP B 185 64.30 35.43 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 907 DISTANCE = 5.90 ANGSTROMS 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 MG A 602 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 155 OD1 REMARK 620 2 ASP A 181 OD2 92.9 REMARK 620 3 ASN A 182 OD1 90.9 89.4 REMARK 620 4 HOH A 712 O 93.2 92.8 175.3 REMARK 620 5 HOH A 791 O 176.3 85.8 92.6 83.4 REMARK 620 6 HOH A 825 O 95.5 171.2 87.7 89.5 86.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 155 OD1 REMARK 620 2 ASP B 181 OD2 93.6 REMARK 620 3 ASN B 182 OD1 93.5 88.9 REMARK 620 4 H6N B 501 O3 75.2 168.1 87.7 REMARK 620 5 H6N B 501 O3 144.1 120.9 79.0 69.5 REMARK 620 6 H6N B 501 O4 146.5 119.4 82.9 71.4 4.3 REMARK 620 7 H6N B 501 O4 71.6 165.2 92.4 5.8 73.7 75.3 REMARK 620 8 HOH B 601 O 156.5 66.6 98.5 125.2 58.8 55.8 127.6 REMARK 620 9 HOH B 621 O 93.7 91.5 172.7 93.4 94.6 90.6 89.1 75.0 REMARK 620 N 1 2 3 4 5 6 7 8 DBREF1 8XDP A 1 239 UNP A0A6B9TNK2_9ASPA DBREF2 8XDP A A0A6B9TNK2 1 239 DBREF1 8XDP B 1 239 UNP A0A6B9TNK2_9ASPA DBREF2 8XDP B A0A6B9TNK2 1 239 SEQADV 8XDP GLY A -2 UNP A0A6B9TNK EXPRESSION TAG SEQADV 8XDP PRO A -1 UNP A0A6B9TNK EXPRESSION TAG SEQADV 8XDP GLY A 0 UNP A0A6B9TNK EXPRESSION TAG SEQADV 8XDP GLY B -2 UNP A0A6B9TNK EXPRESSION TAG SEQADV 8XDP PRO B -1 UNP A0A6B9TNK EXPRESSION TAG SEQADV 8XDP GLY B 0 UNP A0A6B9TNK EXPRESSION TAG SEQRES 1 A 242 GLY PRO GLY MET GLY ALA SER GLN ASP ASP TYR ALA LEU SEQRES 2 A 242 ILE HIS LYS ASN ILE LEU HIS SER GLU ASP LEU LEU LYS SEQRES 3 A 242 TYR ILE LEU GLU THR SER VAL TYR PRO ARG GLU HIS GLU SEQRES 4 A 242 GLN LEU LYS GLY LEU ARG GLU VAL THR GLU LYS HIS GLU SEQRES 5 A 242 TRP SER MET ALA LEU VAL ALA ALA ASP GLU GLY LEU PHE SEQRES 6 A 242 LEU SER MET LEU LEU LYS LEU MET ASN ALA LYS ARG THR SEQRES 7 A 242 ILE GLU ILE GLY VAL TYR THR GLY TYR SER LEU LEU THR SEQRES 8 A 242 THR ALA LEU ALA LEU PRO GLU ASP GLY LYS ILE THR ALA SEQRES 9 A 242 ILE ASP VAL ASN LYS SER TYR PHE GLU ILE GLY LEU PRO SEQRES 10 A 242 PHE ILE GLN LYS ALA GLY VAL GLU HIS LYS ILE ASN PHE SEQRES 11 A 242 ILE GLU SER GLU ALA LEU PRO VAL LEU ASP GLN MET LEU SEQRES 12 A 242 GLN GLU MET LYS GLU GLU ASP LEU TYR ASP PHE ALA PHE SEQRES 13 A 242 VAL ASP ALA ASP LYS PRO ASN TYR ALA ASN TYR HIS GLU SEQRES 14 A 242 ARG LEU VAL LYS LEU VAL ARG VAL GLY GLY ALA ILE VAL SEQRES 15 A 242 TYR ASP ASN THR LEU TRP PHE GLY THR VAL ALA PHE PRO SEQRES 16 A 242 GLU TYR PRO GLY LEU HIS PRO GLU GLU GLU GLU CYS ARG SEQRES 17 A 242 VAL SER PHE ARG ASN LEU ASN LYS LEU LEU ALA ALA ASP SEQRES 18 A 242 PRO ARG VAL GLU ILE SER GLN VAL SER ILE GLY ASP GLY SEQRES 19 A 242 LEU THR ILE CYS ARG ARG LEU TYR SEQRES 1 B 242 GLY PRO GLY MET GLY ALA SER GLN ASP ASP TYR ALA LEU SEQRES 2 B 242 ILE HIS LYS ASN ILE LEU HIS SER GLU ASP LEU LEU LYS SEQRES 3 B 242 TYR ILE LEU GLU THR SER VAL TYR PRO ARG GLU HIS GLU SEQRES 4 B 242 GLN LEU LYS GLY LEU ARG GLU VAL THR GLU LYS HIS GLU SEQRES 5 B 242 TRP SER MET ALA LEU VAL ALA ALA ASP GLU GLY LEU PHE SEQRES 6 B 242 LEU SER MET LEU LEU LYS LEU MET ASN ALA LYS ARG THR SEQRES 7 B 242 ILE GLU ILE GLY VAL TYR THR GLY TYR SER LEU LEU THR SEQRES 8 B 242 THR ALA LEU ALA LEU PRO GLU ASP GLY LYS ILE THR ALA SEQRES 9 B 242 ILE ASP VAL ASN LYS SER TYR PHE GLU ILE GLY LEU PRO SEQRES 10 B 242 PHE ILE GLN LYS ALA GLY VAL GLU HIS LYS ILE ASN PHE SEQRES 11 B 242 ILE GLU SER GLU ALA LEU PRO VAL LEU ASP GLN MET LEU SEQRES 12 B 242 GLN GLU MET LYS GLU GLU ASP LEU TYR ASP PHE ALA PHE SEQRES 13 B 242 VAL ASP ALA ASP LYS PRO ASN TYR ALA ASN TYR HIS GLU SEQRES 14 B 242 ARG LEU VAL LYS LEU VAL ARG VAL GLY GLY ALA ILE VAL SEQRES 15 B 242 TYR ASP ASN THR LEU TRP PHE GLY THR VAL ALA PHE PRO SEQRES 16 B 242 GLU TYR PRO GLY LEU HIS PRO GLU GLU GLU GLU CYS ARG SEQRES 17 B 242 VAL SER PHE ARG ASN LEU ASN LYS LEU LEU ALA ALA ASP SEQRES 18 B 242 PRO ARG VAL GLU ILE SER GLN VAL SER ILE GLY ASP GLY SEQRES 19 B 242 LEU THR ILE CYS ARG ARG LEU TYR HET GOL A 601 6 HET MG A 602 1 HET SAH A 603 26 HET H6N B 501 20 HET MG B 502 1 HET SAH B 503 26 HETNAM GOL GLYCEROL HETNAM MG MAGNESIUM ION HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE HETNAM H6N PROTOCATECHUIC ALDEHYDE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GOL C3 H8 O3 FORMUL 4 MG 2(MG 2+) FORMUL 5 SAH 2(C14 H20 N6 O5 S) FORMUL 6 H6N C7 H6 O3 FORMUL 9 HOH *411(H2 O) HELIX 1 AA1 SER A 4 TYR A 8 5 5 HELIX 2 AA2 SER A 18 VAL A 30 1 13 HELIX 3 AA3 TYR A 31 GLU A 34 5 4 HELIX 4 AA4 HIS A 35 LYS A 47 1 13 HELIX 5 AA5 TRP A 50 LEU A 54 5 5 HELIX 6 AA6 ALA A 56 MET A 70 1 15 HELIX 7 AA7 GLY A 83 LEU A 93 1 11 HELIX 8 AA8 ASN A 105 ALA A 119 1 15 HELIX 9 AA9 VAL A 121 HIS A 123 5 3 HELIX 10 AB1 GLU A 131 MET A 143 1 13 HELIX 11 AB2 LYS A 144 LEU A 148 5 5 HELIX 12 AB3 ASP A 157 PRO A 159 5 3 HELIX 13 AB4 ASN A 160 LEU A 171 1 12 HELIX 14 AB5 LEU A 184 PHE A 191 5 8 HELIX 15 AB6 HIS A 198 ASP A 218 1 21 HELIX 16 AB7 SER B 4 TYR B 8 5 5 HELIX 17 AB8 SER B 18 VAL B 30 1 13 HELIX 18 AB9 TYR B 31 GLU B 34 5 4 HELIX 19 AC1 HIS B 35 GLU B 46 1 12 HELIX 20 AC2 TRP B 50 LEU B 54 5 5 HELIX 21 AC3 ALA B 56 MET B 70 1 15 HELIX 22 AC4 GLY B 83 LEU B 93 1 11 HELIX 23 AC5 ASN B 105 ALA B 119 1 15 HELIX 24 AC6 VAL B 121 HIS B 123 5 3 HELIX 25 AC7 GLU B 131 MET B 143 1 13 HELIX 26 AC8 LYS B 144 LEU B 148 5 5 HELIX 27 AC9 ASP B 157 PRO B 159 5 3 HELIX 28 AD1 ASN B 160 LEU B 171 1 12 HELIX 29 AD2 LEU B 184 PHE B 191 5 8 HELIX 30 AD3 HIS B 198 ASP B 218 1 21 SHEET 1 AA1 7 ILE A 125 GLU A 129 0 SHEET 2 AA1 7 LYS A 98 ASP A 103 1 N ALA A 101 O ILE A 128 SHEET 3 AA1 7 ARG A 74 ILE A 78 1 N GLU A 77 O THR A 100 SHEET 4 AA1 7 TYR A 149 VAL A 154 1 O ASP A 150 N ARG A 74 SHEET 5 AA1 7 VAL A 172 ASP A 181 1 O VAL A 179 N VAL A 154 SHEET 6 AA1 7 LEU A 232 ARG A 237 -1 O CYS A 235 N ILE A 178 SHEET 7 AA1 7 VAL A 221 VAL A 226 -1 N VAL A 226 O LEU A 232 SHEET 1 AA2 7 ILE B 125 GLU B 129 0 SHEET 2 AA2 7 LYS B 98 ASP B 103 1 N ALA B 101 O ILE B 128 SHEET 3 AA2 7 ARG B 74 ILE B 78 1 N GLU B 77 O THR B 100 SHEET 4 AA2 7 TYR B 149 VAL B 154 1 O ASP B 150 N ARG B 74 SHEET 5 AA2 7 VAL B 172 ASP B 181 1 O ARG B 173 N TYR B 149 SHEET 6 AA2 7 LEU B 232 ARG B 237 -1 O CYS B 235 N ILE B 178 SHEET 7 AA2 7 VAL B 221 VAL B 226 -1 N VAL B 226 O LEU B 232 LINK OD1 ASP A 155 MG MG A 602 1555 1555 2.21 LINK OD2 ASP A 181 MG MG A 602 1555 1555 2.00 LINK OD1 ASN A 182 MG MG A 602 1555 1555 2.14 LINK MG MG A 602 O HOH A 712 1555 1555 2.07 LINK MG MG A 602 O HOH A 791 1555 1555 2.20 LINK MG MG A 602 O HOH A 825 1555 1555 2.08 LINK OD1 ASP B 155 MG MG B 502 1555 1555 2.10 LINK OD2 ASP B 181 MG MG B 502 1555 1555 1.94 LINK OD1 ASN B 182 MG MG B 502 1555 1555 2.15 LINK O3 AH6N B 501 MG MG B 502 1555 1555 2.49 LINK O3 BH6N B 501 MG MG B 502 1555 1555 2.40 LINK O4 AH6N B 501 MG MG B 502 1555 1555 2.21 LINK O4 BH6N B 501 MG MG B 502 1555 1555 2.20 LINK MG MG B 502 O HOH B 601 1555 1555 2.45 LINK MG MG B 502 O HOH B 621 1555 1555 2.13 CRYST1 49.781 81.421 118.454 90.00 90.00 90.00 P 2 21 21 8 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 0.020088 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012282 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008442 0.00000