HEADER TRANSFERASE 07-SEP-17 5YCD TITLE CRYSTAL STRUCTURE OF POECILIA RETICULATA ADENYLATE KINASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADENYLAYTE KINASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: POECILIA RETICULATA; SOURCE 3 ORGANISM_TAXID: 8081; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PHOSPHORYLATION, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR E.BAE,J.KIM,S.MOON REVDAT 3 22-NOV-23 5YCD 1 REMARK REVDAT 2 19-SEP-18 5YCD 1 JRNL REVDAT 1 12-SEP-18 5YCD 0 JRNL AUTH E.BAE,J.KIM,S.MOON JRNL TITL CRYSTAL STRUCTURE OF POECILIA RETICULATA ADENYLATE KINASE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.18 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 37930 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1896 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 31.1822 - 4.3342 1.00 2765 146 0.1514 0.1839 REMARK 3 2 4.3342 - 3.4416 1.00 2637 138 0.1395 0.1699 REMARK 3 3 3.4416 - 3.0070 1.00 2617 138 0.1622 0.2111 REMARK 3 4 3.0070 - 2.7322 1.00 2569 135 0.1815 0.2325 REMARK 3 5 2.7322 - 2.5365 1.00 2580 137 0.1792 0.2422 REMARK 3 6 2.5365 - 2.3870 1.00 2570 135 0.1828 0.2328 REMARK 3 7 2.3870 - 2.2675 1.00 2542 134 0.1708 0.2155 REMARK 3 8 2.2675 - 2.1688 1.00 2562 134 0.1707 0.2129 REMARK 3 9 2.1688 - 2.0853 1.00 2564 134 0.1786 0.2289 REMARK 3 10 2.0853 - 2.0134 1.00 2544 134 0.1822 0.2186 REMARK 3 11 2.0134 - 1.9505 1.00 2526 134 0.1824 0.1974 REMARK 3 12 1.9505 - 1.8947 1.00 2550 134 0.2010 0.2546 REMARK 3 13 1.8947 - 1.8448 1.00 2533 133 0.1991 0.2668 REMARK 3 14 1.8448 - 1.7998 0.97 2475 130 0.2023 0.2550 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.330 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.007 3111 REMARK 3 ANGLE : 1.193 4195 REMARK 3 CHIRALITY : 0.041 468 REMARK 3 PLANARITY : 0.004 516 REMARK 3 DIHEDRAL : 12.841 1177 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 3 THROUGH 20 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.5275 -8.7438 -20.7009 REMARK 3 T TENSOR REMARK 3 T11: 0.3526 T22: 0.1861 REMARK 3 T33: 0.2293 T12: 0.0719 REMARK 3 T13: -0.0662 T23: -0.0760 REMARK 3 L TENSOR REMARK 3 L11: 5.4022 L22: 4.8074 REMARK 3 L33: 2.3876 L12: -1.9962 REMARK 3 L13: 0.0384 L23: -1.0729 REMARK 3 S TENSOR REMARK 3 S11: 0.0177 S12: 0.0374 S13: -0.5917 REMARK 3 S21: -0.1916 S22: 0.2774 S23: -0.4409 REMARK 3 S31: 0.7858 S32: 0.2204 S33: -0.0355 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 21 THROUGH 48 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.5419 -2.6704 -11.7914 REMARK 3 T TENSOR REMARK 3 T11: 0.2190 T22: 0.1846 REMARK 3 T33: 0.1067 T12: 0.0148 REMARK 3 T13: -0.0277 T23: -0.0179 REMARK 3 L TENSOR REMARK 3 L11: 6.7379 L22: 1.7585 REMARK 3 L33: 1.9979 L12: 1.5727 REMARK 3 L13: -0.9840 L23: -0.3832 REMARK 3 S TENSOR REMARK 3 S11: 0.2513 S12: -0.4469 S13: -0.1307 REMARK 3 S21: 0.2109 S22: -0.1486 S23: -0.0400 REMARK 3 S31: 0.2033 S32: 0.0866 S33: -0.1228 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 49 THROUGH 63 ) REMARK 3 ORIGIN FOR THE GROUP (A): 6.8147 11.1847 -16.3288 REMARK 3 T TENSOR REMARK 3 T11: 0.1496 T22: 0.3169 REMARK 3 T33: 0.3096 T12: -0.0315 REMARK 3 T13: 0.0132 T23: -0.0891 REMARK 3 L TENSOR REMARK 3 L11: 4.8471 L22: 4.7011 REMARK 3 L33: 4.7647 L12: -4.5395 REMARK 3 L13: 4.2276 L23: -3.6949 REMARK 3 S TENSOR REMARK 3 S11: 0.0924 S12: -0.0548 S13: 1.0946 REMARK 3 S21: 0.0530 S22: 0.0325 S23: -0.2939 REMARK 3 S31: -0.4477 S32: 0.8571 S33: 0.0913 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 64 THROUGH 83 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.1064 -2.1371 -20.6129 REMARK 3 T TENSOR REMARK 3 T11: 0.2073 T22: 0.3185 REMARK 3 T33: 0.2447 T12: 0.1167 REMARK 3 T13: -0.0384 T23: -0.0590 REMARK 3 L TENSOR REMARK 3 L11: 2.0618 L22: 8.0662 REMARK 3 L33: 3.8246 L12: -1.7772 REMARK 3 L13: 0.2579 L23: -3.1017 REMARK 3 S TENSOR REMARK 3 S11: -0.0381 S12: -0.1654 S13: 0.0092 REMARK 3 S21: -0.2053 S22: 0.0276 S23: -0.9503 REMARK 3 S31: 0.5153 S32: 0.6119 S33: 0.0931 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 84 THROUGH 98 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.8891 -7.4474 -18.3275 REMARK 3 T TENSOR REMARK 3 T11: 0.2848 T22: 0.1542 REMARK 3 T33: 0.1423 T12: 0.0396 REMARK 3 T13: -0.0583 T23: -0.0453 REMARK 3 L TENSOR REMARK 3 L11: 4.3638 L22: 3.6402 REMARK 3 L33: 8.5343 L12: -1.7406 REMARK 3 L13: 1.4933 L23: -5.4455 REMARK 3 S TENSOR REMARK 3 S11: 0.1657 S12: -0.1568 S13: -0.2195 REMARK 3 S21: -0.5016 S22: 0.0822 S23: 0.2491 REMARK 3 S31: 0.8325 S32: 0.1534 S33: -0.1465 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 99 THROUGH 121 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.8338 -4.9178 -26.9750 REMARK 3 T TENSOR REMARK 3 T11: 0.2102 T22: 0.1623 REMARK 3 T33: 0.0672 T12: 0.0268 REMARK 3 T13: -0.0518 T23: -0.0289 REMARK 3 L TENSOR REMARK 3 L11: 4.1825 L22: 5.0981 REMARK 3 L33: 4.5616 L12: -0.8079 REMARK 3 L13: -0.6811 L23: 0.7413 REMARK 3 S TENSOR REMARK 3 S11: 0.0091 S12: 0.2935 S13: -0.2220 REMARK 3 S21: -0.1777 S22: 0.0081 S23: -0.2348 REMARK 3 S31: 0.4446 S32: 0.1863 S33: 0.0095 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 122 THROUGH 142 ) REMARK 3 ORIGIN FOR THE GROUP (A): -13.2572 14.4740 -13.0192 REMARK 3 T TENSOR REMARK 3 T11: 0.1978 T22: 0.2061 REMARK 3 T33: 0.1560 T12: 0.0489 REMARK 3 T13: 0.0307 T23: 0.0197 REMARK 3 L TENSOR REMARK 3 L11: 5.7488 L22: 8.4580 REMARK 3 L33: 2.7713 L12: 5.5598 REMARK 3 L13: 3.0901 L23: 4.3042 REMARK 3 S TENSOR REMARK 3 S11: 0.0839 S12: 0.1698 S13: 0.0700 REMARK 3 S21: 0.2269 S22: 0.0278 S23: -0.0318 REMARK 3 S31: -0.2972 S32: 0.2395 S33: -0.1473 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 143 THROUGH 156 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.1156 14.2207 -24.5698 REMARK 3 T TENSOR REMARK 3 T11: 0.3084 T22: 0.2313 REMARK 3 T33: 0.2735 T12: 0.0455 REMARK 3 T13: 0.0115 T23: 0.0836 REMARK 3 L TENSOR REMARK 3 L11: 6.1409 L22: 7.7483 REMARK 3 L33: 2.7940 L12: 1.3267 REMARK 3 L13: 1.8034 L23: 4.4737 REMARK 3 S TENSOR REMARK 3 S11: -0.1608 S12: 0.2981 S13: 0.8411 REMARK 3 S21: -0.8006 S22: 0.0770 S23: -0.3056 REMARK 3 S31: -0.7314 S32: -0.0183 S33: 0.0269 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 157 THROUGH 178 ) REMARK 3 ORIGIN FOR THE GROUP (A): -17.0856 -2.1923 -26.8735 REMARK 3 T TENSOR REMARK 3 T11: 0.2010 T22: 0.2729 REMARK 3 T33: 0.1376 T12: -0.0018 REMARK 3 T13: -0.0500 T23: -0.0324 REMARK 3 L TENSOR REMARK 3 L11: 1.8944 L22: 1.0870 REMARK 3 L33: 3.5241 L12: -0.0058 REMARK 3 L13: -0.8314 L23: 0.6710 REMARK 3 S TENSOR REMARK 3 S11: 0.1112 S12: 0.1701 S13: 0.0911 REMARK 3 S21: -0.2334 S22: -0.1170 S23: 0.2371 REMARK 3 S31: 0.0342 S32: -0.4432 S33: 0.0301 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 179 THROUGH 193 ) REMARK 3 ORIGIN FOR THE GROUP (A): -22.2117 -8.1689 -15.2287 REMARK 3 T TENSOR REMARK 3 T11: 0.2659 T22: 0.3236 REMARK 3 T33: 0.2002 T12: -0.0996 REMARK 3 T13: -0.0345 T23: 0.0281 REMARK 3 L TENSOR REMARK 3 L11: 3.8071 L22: 7.6297 REMARK 3 L33: 4.3021 L12: -5.1356 REMARK 3 L13: -2.0644 L23: 1.3600 REMARK 3 S TENSOR REMARK 3 S11: 0.1068 S12: -0.1798 S13: -0.3412 REMARK 3 S21: 0.0262 S22: 0.0691 S23: 0.4522 REMARK 3 S31: 0.7205 S32: -0.6648 S33: -0.1716 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 20 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.7803 8.3108 8.3830 REMARK 3 T TENSOR REMARK 3 T11: 0.2436 T22: 0.1872 REMARK 3 T33: 0.1402 T12: -0.0374 REMARK 3 T13: 0.0054 T23: 0.0178 REMARK 3 L TENSOR REMARK 3 L11: 6.2961 L22: 6.2107 REMARK 3 L33: 2.4989 L12: 4.9440 REMARK 3 L13: 0.8103 L23: 0.1789 REMARK 3 S TENSOR REMARK 3 S11: -0.0500 S12: 0.0281 S13: -0.0169 REMARK 3 S21: -0.2266 S22: 0.0785 S23: -0.2127 REMARK 3 S31: -0.4660 S32: 0.0822 S33: -0.0131 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 21 THROUGH 63 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.0123 -3.8961 2.0422 REMARK 3 T TENSOR REMARK 3 T11: 0.1454 T22: 0.1567 REMARK 3 T33: 0.1860 T12: -0.0116 REMARK 3 T13: -0.0316 T23: -0.0418 REMARK 3 L TENSOR REMARK 3 L11: 3.8935 L22: 2.4886 REMARK 3 L33: 2.0311 L12: -0.8486 REMARK 3 L13: 0.3566 L23: 0.2879 REMARK 3 S TENSOR REMARK 3 S11: 0.2029 S12: 0.2521 S13: -0.5432 REMARK 3 S21: -0.1000 S22: -0.0855 S23: -0.1241 REMARK 3 S31: 0.1199 S32: 0.1919 S33: -0.1175 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 64 THROUGH 98 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.2871 2.7766 8.0029 REMARK 3 T TENSOR REMARK 3 T11: 0.1276 T22: 0.1552 REMARK 3 T33: 0.1317 T12: -0.0413 REMARK 3 T13: -0.0024 T23: -0.0479 REMARK 3 L TENSOR REMARK 3 L11: 4.3497 L22: 7.6565 REMARK 3 L33: 4.6041 L12: 1.1851 REMARK 3 L13: 0.0447 L23: -2.2595 REMARK 3 S TENSOR REMARK 3 S11: 0.0627 S12: 0.0132 S13: -0.2495 REMARK 3 S21: -0.0224 S22: -0.0298 S23: -0.4031 REMARK 3 S31: -0.2049 S32: 0.2796 S33: -0.0086 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 99 THROUGH 142 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.7325 -5.3911 9.0598 REMARK 3 T TENSOR REMARK 3 T11: 0.1496 T22: 0.1778 REMARK 3 T33: 0.1215 T12: -0.0224 REMARK 3 T13: -0.0047 T23: 0.0686 REMARK 3 L TENSOR REMARK 3 L11: 1.7536 L22: 4.1849 REMARK 3 L33: 2.7935 L12: 0.3044 REMARK 3 L13: 0.7506 L23: 1.6152 REMARK 3 S TENSOR REMARK 3 S11: 0.1315 S12: -0.0344 S13: -0.2977 REMARK 3 S21: 0.0469 S22: -0.0778 S23: 0.0161 REMARK 3 S31: 0.1797 S32: 0.0100 S33: -0.0500 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 143 THROUGH 156 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.5350 -15.1692 13.9778 REMARK 3 T TENSOR REMARK 3 T11: 0.3597 T22: 0.2644 REMARK 3 T33: 0.3224 T12: -0.1329 REMARK 3 T13: -0.0557 T23: 0.1493 REMARK 3 L TENSOR REMARK 3 L11: 5.1832 L22: 7.6557 REMARK 3 L33: 8.2381 L12: -3.2767 REMARK 3 L13: -3.9053 L23: 2.1231 REMARK 3 S TENSOR REMARK 3 S11: -0.0928 S12: -0.1875 S13: -0.7119 REMARK 3 S21: 0.5823 S22: -0.0947 S23: 0.0068 REMARK 3 S31: 1.1426 S32: -0.2217 S33: 0.2309 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 157 THROUGH 193 ) REMARK 3 ORIGIN FOR THE GROUP (A): -13.5443 3.4622 10.5267 REMARK 3 T TENSOR REMARK 3 T11: 0.1377 T22: 0.2384 REMARK 3 T33: 0.2029 T12: 0.0166 REMARK 3 T13: 0.0210 T23: -0.0088 REMARK 3 L TENSOR REMARK 3 L11: 3.6046 L22: 1.7126 REMARK 3 L33: 5.1809 L12: -0.3730 REMARK 3 L13: 2.0604 L23: 0.2752 REMARK 3 S TENSOR REMARK 3 S11: 0.1332 S12: -0.1114 S13: -0.3297 REMARK 3 S21: 0.1442 S22: -0.1194 S23: 0.3890 REMARK 3 S31: -0.1481 S32: -0.5903 S33: -0.0149 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 5YCD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 08-SEP-17. REMARK 100 THE DEPOSITION ID IS D_1300004905. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JUL-17 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 : PAL/PLS REMARK 200 BEAMLINE : 7A (6B, 6C1) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979933 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37999 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 14.20 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 28.0100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 14.10 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.130 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 5X6K REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 27.5% PEG3350, 0.1M CITRIC ACID, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 20.39500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 60.06150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.75250 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 60.06150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 20.39500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.75250 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9150 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1380 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9240 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -4.0 KCAL/MOL 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 MET A 1 REMARK 465 ALA A 2 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 ILE A 109 -66.00 -130.74 REMARK 500 ASP A 141 44.81 -90.03 REMARK 500 ILE B 109 -66.01 -132.58 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 443 DISTANCE = 6.13 ANGSTROMS REMARK 525 HOH B 466 DISTANCE = 5.82 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 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 AP5 A 201 O1G REMARK 620 2 AP5 A 201 O2D 81.5 REMARK 620 3 HOH A 303 O 73.3 78.7 REMARK 620 4 HOH A 315 O 158.5 115.1 95.8 REMARK 620 5 HOH A 345 O 130.5 83.3 147.4 67.7 REMARK 620 6 HOH A 357 O 91.7 166.0 111.3 74.7 91.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 AP5 B 201 O2G REMARK 620 2 AP5 B 201 O2D 79.4 REMARK 620 3 HOH B 306 O 66.6 85.5 REMARK 620 4 HOH B 335 O 90.3 154.7 111.7 REMARK 620 5 HOH B 366 O 164.3 112.3 102.8 82.9 REMARK 620 6 HOH B 385 O 125.8 77.6 155.8 90.2 68.6 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue AP5 A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue AP5 B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 202 DBREF 5YCD A 1 193 PDB 5YCD 5YCD 1 193 DBREF 5YCD B 1 193 PDB 5YCD 5YCD 1 193 SEQRES 1 A 193 MET ALA ASP LYS ILE LYS ASP ALA LYS ILE ILE PHE VAL SEQRES 2 A 193 VAL GLY GLY PRO GLY SER GLY LYS GLY THR GLN CYS GLU SEQRES 3 A 193 LYS ILE VAL ALA LYS TYR GLY TYR THR HIS LEU SER SER SEQRES 4 A 193 GLY ASP LEU LEU ARG ALA GLU VAL ALA SER GLY SER GLU SEQRES 5 A 193 ARG GLY LYS GLN LEU GLN ALA ILE MET GLN LYS GLY GLU SEQRES 6 A 193 LEU VAL PRO LEU ASP THR VAL LEU ASP MET ILE LYS ASP SEQRES 7 A 193 ALA MET ILE ALA LYS ALA ASP VAL SER LYS GLY PHE LEU SEQRES 8 A 193 ILE ASP GLY TYR PRO ARG GLU VAL LYS GLN GLY GLU GLU SEQRES 9 A 193 PHE GLU LYS LYS ILE GLY LYS PRO CYS LEU LEU LEU TYR SEQRES 10 A 193 VAL ASP ALA LYS ALA GLU THR MET VAL LYS ARG LEU LEU SEQRES 11 A 193 LYS ARG GLY GLU THR SER GLY ARG SER ASP ASP ASN GLU SEQRES 12 A 193 GLU THR ILE LYS LYS ARG LEU ASP LEU TYR TYR LYS ALA SEQRES 13 A 193 THR GLU PRO VAL ILE ALA PHE TYR GLU GLY ARG GLY ILE SEQRES 14 A 193 VAL LYS LYS VAL ASP SER GLU LEU ALA VAL ASP ASP VAL SEQRES 15 A 193 PHE GLY GLN VAL SER LYS ALA ILE ASP ALA LEU SEQRES 1 B 193 MET ALA ASP LYS ILE LYS ASP ALA LYS ILE ILE PHE VAL SEQRES 2 B 193 VAL GLY GLY PRO GLY SER GLY LYS GLY THR GLN CYS GLU SEQRES 3 B 193 LYS ILE VAL ALA LYS TYR GLY TYR THR HIS LEU SER SER SEQRES 4 B 193 GLY ASP LEU LEU ARG ALA GLU VAL ALA SER GLY SER GLU SEQRES 5 B 193 ARG GLY LYS GLN LEU GLN ALA ILE MET GLN LYS GLY GLU SEQRES 6 B 193 LEU VAL PRO LEU ASP THR VAL LEU ASP MET ILE LYS ASP SEQRES 7 B 193 ALA MET ILE ALA LYS ALA ASP VAL SER LYS GLY PHE LEU SEQRES 8 B 193 ILE ASP GLY TYR PRO ARG GLU VAL LYS GLN GLY GLU GLU SEQRES 9 B 193 PHE GLU LYS LYS ILE GLY LYS PRO CYS LEU LEU LEU TYR SEQRES 10 B 193 VAL ASP ALA LYS ALA GLU THR MET VAL LYS ARG LEU LEU SEQRES 11 B 193 LYS ARG GLY GLU THR SER GLY ARG SER ASP ASP ASN GLU SEQRES 12 B 193 GLU THR ILE LYS LYS ARG LEU ASP LEU TYR TYR LYS ALA SEQRES 13 B 193 THR GLU PRO VAL ILE ALA PHE TYR GLU GLY ARG GLY ILE SEQRES 14 B 193 VAL LYS LYS VAL ASP SER GLU LEU ALA VAL ASP ASP VAL SEQRES 15 B 193 PHE GLY GLN VAL SER LYS ALA ILE ASP ALA LEU HET AP5 A 201 57 HET MG A 202 1 HET AP5 B 201 57 HET MG B 202 1 HETNAM AP5 BIS(ADENOSINE)-5'-PENTAPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 3 AP5 2(C20 H29 N10 O22 P5) FORMUL 4 MG 2(MG 2+) FORMUL 7 HOH *309(H2 O) HELIX 1 AA1 GLY A 20 GLY A 33 1 14 HELIX 2 AA2 SER A 39 SER A 49 1 11 HELIX 3 AA3 SER A 51 LYS A 63 1 13 HELIX 4 AA4 PRO A 68 ALA A 84 1 17 HELIX 5 AA5 GLU A 98 ILE A 109 1 12 HELIX 6 AA6 LYS A 121 GLU A 134 1 14 HELIX 7 AA7 ASN A 142 THR A 157 1 16 HELIX 8 AA8 THR A 157 GLY A 168 1 12 HELIX 9 AA9 ALA A 178 ALA A 192 1 15 HELIX 10 AB1 ALA B 2 ALA B 8 1 7 HELIX 11 AB2 GLY B 20 GLY B 33 1 14 HELIX 12 AB3 SER B 39 SER B 49 1 11 HELIX 13 AB4 SER B 51 LYS B 63 1 13 HELIX 14 AB5 PRO B 68 ALA B 84 1 17 HELIX 15 AB6 GLU B 98 ILE B 109 1 12 HELIX 16 AB7 LYS B 121 GLY B 133 1 13 HELIX 17 AB8 ASN B 142 THR B 157 1 16 HELIX 18 AB9 THR B 157 GLY B 168 1 12 HELIX 19 AC1 ALA B 178 ALA B 192 1 15 SHEET 1 AA1 5 THR A 35 SER A 38 0 SHEET 2 AA1 5 PHE A 90 ASP A 93 1 O LEU A 91 N THR A 35 SHEET 3 AA1 5 ILE A 10 GLY A 15 1 N ILE A 11 O PHE A 90 SHEET 4 AA1 5 LEU A 114 ASP A 119 1 O LEU A 116 N PHE A 12 SHEET 5 AA1 5 VAL A 170 ASP A 174 1 O VAL A 173 N TYR A 117 SHEET 1 AA2 5 THR B 35 SER B 38 0 SHEET 2 AA2 5 PHE B 90 ASP B 93 1 O LEU B 91 N LEU B 37 SHEET 3 AA2 5 ILE B 10 GLY B 15 1 N ILE B 11 O ILE B 92 SHEET 4 AA2 5 LEU B 114 ASP B 119 1 O LEU B 116 N PHE B 12 SHEET 5 AA2 5 VAL B 170 ASP B 174 1 O VAL B 173 N TYR B 117 LINK O1G AP5 A 201 MG MG A 202 1555 1555 2.66 LINK O2D AP5 A 201 MG MG A 202 1555 1555 2.26 LINK MG MG A 202 O HOH A 303 1555 1555 2.34 LINK MG MG A 202 O HOH A 315 1555 1555 2.50 LINK MG MG A 202 O HOH A 345 1555 1555 2.47 LINK MG MG A 202 O HOH A 357 1555 1555 2.23 LINK O2G AP5 B 201 MG MG B 202 1555 1555 2.83 LINK O2D AP5 B 201 MG MG B 202 1555 1555 2.30 LINK MG MG B 202 O HOH B 306 1555 1555 2.20 LINK MG MG B 202 O HOH B 335 1555 1555 2.29 LINK MG MG B 202 O HOH B 366 1555 1555 2.24 LINK MG MG B 202 O HOH B 385 1555 1555 2.37 CISPEP 1 TYR A 95 PRO A 96 0 2.51 CISPEP 2 TYR B 95 PRO B 96 0 3.09 SITE 1 AC1 41 GLY A 16 PRO A 17 GLY A 18 SER A 19 SITE 2 AC1 41 GLY A 20 LYS A 21 GLY A 22 THR A 23 SITE 3 AC1 41 SER A 39 GLY A 40 LEU A 43 ARG A 44 SITE 4 AC1 41 MET A 61 GLU A 65 LEU A 66 VAL A 67 SITE 5 AC1 41 GLY A 94 TYR A 95 ARG A 97 GLN A 101 SITE 6 AC1 41 ARG A 128 LEU A 129 ARG A 132 ARG A 138 SITE 7 AC1 41 ARG A 149 SER A 175 LEU A 177 VAL A 179 SITE 8 AC1 41 MG A 202 HOH A 301 HOH A 303 HOH A 307 SITE 9 AC1 41 HOH A 316 HOH A 321 HOH A 325 HOH A 332 SITE 10 AC1 41 HOH A 337 HOH A 357 HOH A 359 HOH A 360 SITE 11 AC1 41 HOH A 364 SITE 1 AC2 5 AP5 A 201 HOH A 303 HOH A 315 HOH A 345 SITE 2 AC2 5 HOH A 357 SITE 1 AC3 42 ALA A 30 PRO B 17 GLY B 18 SER B 19 SITE 2 AC3 42 GLY B 20 LYS B 21 GLY B 22 THR B 23 SITE 3 AC3 42 SER B 39 GLY B 40 LEU B 43 ARG B 44 SITE 4 AC3 42 MET B 61 GLU B 65 VAL B 67 GLY B 94 SITE 5 AC3 42 TYR B 95 ARG B 97 GLN B 101 ARG B 128 SITE 6 AC3 42 LEU B 129 ARG B 132 ARG B 138 ARG B 149 SITE 7 AC3 42 SER B 175 LEU B 177 VAL B 179 MG B 202 SITE 8 AC3 42 HOH B 301 HOH B 306 HOH B 314 HOH B 331 SITE 9 AC3 42 HOH B 335 HOH B 338 HOH B 345 HOH B 353 SITE 10 AC3 42 HOH B 364 HOH B 374 HOH B 381 HOH B 383 SITE 11 AC3 42 HOH B 385 HOH B 397 SITE 1 AC4 5 AP5 B 201 HOH B 306 HOH B 335 HOH B 366 SITE 2 AC4 5 HOH B 385 CRYST1 40.790 81.505 120.123 90.00 90.00 90.00 P 21 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 0.024516 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012269 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008325 0.00000