HEADER IMMUNE SYSTEM 19-JUN-17 5O9M TITLE CRYSTAL STRUCTURE OF HUMAN HISTAMINE-RELEASING FACTOR (HRF/TCTP) TITLE 2 CONTAINING A DISULPHIDE-LINKED DIMER COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSLATIONALLY-CONTROLLED TUMOR PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: TCTP,FORTILIN,HISTAMINE-RELEASING FACTOR,HRF,P23; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: PROTEIN CONTAINS A C-TERMINAL HIS-TAG SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: TPT1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS IMMUNOGLOBULIN E, ALLERGY, HISTAMINE RELEASING FACTOR, TCTP, HRF, KEYWDS 2 P23, P21, FORTILIN, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR K.A.DORE,J.KASHIWAKURA,J.M.MCDONNELL,H.J.GOULD,T.KAWAKAMI,B.J.SUTTON, AUTHOR 2 A.M.DAVIES REVDAT 2 17-JAN-24 5O9M 1 REMARK REVDAT 1 20-DEC-17 5O9M 0 JRNL AUTH K.A.DORE,J.I.KASHIWAKURA,J.M.MCDONNELL,H.J.GOULD,T.KAWAKAMI, JRNL AUTH 2 B.J.SUTTON,A.M.DAVIES JRNL TITL CRYSTAL STRUCTURES OF MURINE AND HUMAN HISTAMINE-RELEASING JRNL TITL 2 FACTOR (HRF/TCTP) AND A MODEL FOR HRF DIMERISATION IN MAST JRNL TITL 3 CELL ACTIVATION. JRNL REF MOL. IMMUNOL. V. 93 216 2017 JRNL REFN ISSN 1872-9142 JRNL PMID 29216544 JRNL DOI 10.1016/J.MOLIMM.2017.11.022 REMARK 2 REMARK 2 RESOLUTION. 1.40 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) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.86 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.980 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 72706 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.179 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.040 REMARK 3 FREE R VALUE TEST SET COUNT : 3666 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 19.8571 - 4.1355 1.00 2855 164 0.1689 0.1869 REMARK 3 2 4.1355 - 3.2873 0.99 2706 160 0.1532 0.1698 REMARK 3 3 3.2873 - 2.8732 1.00 2718 145 0.1779 0.1844 REMARK 3 4 2.8732 - 2.6111 1.00 2708 137 0.1835 0.2272 REMARK 3 5 2.6111 - 2.4243 1.00 2689 136 0.1829 0.2218 REMARK 3 6 2.4243 - 2.2816 1.00 2675 138 0.1694 0.1932 REMARK 3 7 2.2816 - 2.1675 1.00 2669 137 0.1647 0.1754 REMARK 3 8 2.1675 - 2.0732 0.98 2638 136 0.1669 0.1792 REMARK 3 9 2.0732 - 1.9935 1.00 2668 149 0.1664 0.1640 REMARK 3 10 1.9935 - 1.9248 1.00 2659 145 0.1727 0.2053 REMARK 3 11 1.9248 - 1.8646 1.00 2616 145 0.1726 0.1833 REMARK 3 12 1.8646 - 1.8114 1.00 2665 130 0.1740 0.1951 REMARK 3 13 1.8114 - 1.7637 1.00 2653 133 0.1743 0.1927 REMARK 3 14 1.7637 - 1.7207 1.00 2658 133 0.1771 0.1992 REMARK 3 15 1.7207 - 1.6816 1.00 2653 139 0.1776 0.1757 REMARK 3 16 1.6816 - 1.6458 1.00 2630 140 0.1790 0.1839 REMARK 3 17 1.6458 - 1.6129 1.00 2631 149 0.1920 0.2029 REMARK 3 18 1.6129 - 1.5825 1.00 2623 139 0.1997 0.2426 REMARK 3 19 1.5825 - 1.5543 1.00 2661 146 0.2183 0.2481 REMARK 3 20 1.5543 - 1.5279 0.99 2597 138 0.2286 0.2816 REMARK 3 21 1.5279 - 1.5033 0.99 2639 123 0.2428 0.2730 REMARK 3 22 1.5033 - 1.4802 0.99 2614 133 0.2518 0.2509 REMARK 3 23 1.4802 - 1.4584 0.99 2630 141 0.2523 0.2742 REMARK 3 24 1.4584 - 1.4379 0.99 2571 143 0.2679 0.3008 REMARK 3 25 1.4379 - 1.4184 0.99 2637 144 0.2813 0.2875 REMARK 3 26 1.4184 - 1.4000 0.99 2577 143 0.2937 0.3313 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) : 0.140 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.850 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 : 0.015 2656 REMARK 3 ANGLE : 1.546 3600 REMARK 3 CHIRALITY : 0.114 401 REMARK 3 PLANARITY : 0.009 463 REMARK 3 DIHEDRAL : 13.900 994 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 17 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 18 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.9771 11.1196 -32.5703 REMARK 3 T TENSOR REMARK 3 T11: 0.1097 T22: 0.1099 REMARK 3 T33: 0.1210 T12: 0.0012 REMARK 3 T13: 0.0014 T23: -0.0011 REMARK 3 L TENSOR REMARK 3 L11: 0.5133 L22: 0.4614 REMARK 3 L33: 0.2452 L12: -0.2404 REMARK 3 L13: 0.2577 L23: -0.3219 REMARK 3 S TENSOR REMARK 3 S11: 0.0389 S12: -0.0261 S13: -0.0057 REMARK 3 S21: 0.0546 S22: -0.0171 S23: -0.0004 REMARK 3 S31: 0.1334 S32: 0.0660 S33: 0.0001 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 19 THROUGH 27 ) REMARK 3 ORIGIN FOR THE GROUP (A): -23.4266 16.4265 -32.2800 REMARK 3 T TENSOR REMARK 3 T11: -0.0124 T22: 0.3232 REMARK 3 T33: 0.3277 T12: 0.0069 REMARK 3 T13: 0.0103 T23: -0.0226 REMARK 3 L TENSOR REMARK 3 L11: 0.2962 L22: 0.5445 REMARK 3 L33: 0.8217 L12: -0.3695 REMARK 3 L13: 0.2026 L23: -0.5244 REMARK 3 S TENSOR REMARK 3 S11: 0.1924 S12: -0.4351 S13: 0.1108 REMARK 3 S21: 0.4183 S22: -0.0685 S23: 0.9858 REMARK 3 S31: -0.1063 S32: -0.8061 S33: 0.2850 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 28 THROUGH 64 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.1014 26.9261 -29.2847 REMARK 3 T TENSOR REMARK 3 T11: 0.1625 T22: 0.2052 REMARK 3 T33: 0.1860 T12: -0.0289 REMARK 3 T13: -0.0105 T23: -0.0203 REMARK 3 L TENSOR REMARK 3 L11: 0.2782 L22: 1.0430 REMARK 3 L33: 0.7689 L12: -0.4157 REMARK 3 L13: 0.1987 L23: 0.2651 REMARK 3 S TENSOR REMARK 3 S11: -0.3650 S12: 0.1652 S13: 0.5638 REMARK 3 S21: -0.1462 S22: 0.2489 S23: 0.0222 REMARK 3 S31: -0.2753 S32: 0.2386 S33: -0.0026 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 65 THROUGH 84 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.6790 24.2955 -36.5387 REMARK 3 T TENSOR REMARK 3 T11: 0.1205 T22: 0.1298 REMARK 3 T33: 0.1317 T12: -0.0282 REMARK 3 T13: -0.0079 T23: 0.0343 REMARK 3 L TENSOR REMARK 3 L11: 0.7693 L22: 0.3071 REMARK 3 L33: 1.3989 L12: -0.1534 REMARK 3 L13: -0.2024 L23: 0.7505 REMARK 3 S TENSOR REMARK 3 S11: 0.0297 S12: 0.1495 S13: 0.3374 REMARK 3 S21: -0.0187 S22: -0.0054 S23: -0.1564 REMARK 3 S31: -0.5402 S32: 0.2196 S33: 0.0640 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 85 THROUGH 107 ) REMARK 3 ORIGIN FOR THE GROUP (A): -17.8172 10.8274 -48.6616 REMARK 3 T TENSOR REMARK 3 T11: 0.1443 T22: 0.3432 REMARK 3 T33: -0.1933 T12: -0.0422 REMARK 3 T13: -0.1890 T23: 0.0078 REMARK 3 L TENSOR REMARK 3 L11: 2.7808 L22: 2.5349 REMARK 3 L33: 3.3318 L12: -1.9948 REMARK 3 L13: -0.3169 L23: -0.1350 REMARK 3 S TENSOR REMARK 3 S11: -0.2662 S12: 1.7279 S13: -1.0716 REMARK 3 S21: -0.3005 S22: 0.2308 S23: 1.0310 REMARK 3 S31: 0.8715 S32: -0.9160 S33: -0.7032 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 108 THROUGH 131 ) REMARK 3 ORIGIN FOR THE GROUP (A): -24.5831 16.5725 -44.8233 REMARK 3 T TENSOR REMARK 3 T11: 0.1520 T22: 0.2969 REMARK 3 T33: 0.1839 T12: -0.0163 REMARK 3 T13: -0.0490 T23: 0.0480 REMARK 3 L TENSOR REMARK 3 L11: 0.9146 L22: 3.0296 REMARK 3 L33: 0.5268 L12: 0.4893 REMARK 3 L13: 0.4804 L23: 0.1542 REMARK 3 S TENSOR REMARK 3 S11: 0.0174 S12: -0.3450 S13: -0.0414 REMARK 3 S21: 0.7773 S22: 0.1859 S23: 0.2526 REMARK 3 S31: 0.0702 S32: -0.4160 S33: 0.0540 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 132 THROUGH 157 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.9658 22.7657 -39.6496 REMARK 3 T TENSOR REMARK 3 T11: 0.1383 T22: 0.1158 REMARK 3 T33: 0.1181 T12: 0.0057 REMARK 3 T13: -0.0090 T23: -0.0027 REMARK 3 L TENSOR REMARK 3 L11: 1.8983 L22: 1.2122 REMARK 3 L33: 1.3393 L12: 0.8710 REMARK 3 L13: 0.5960 L23: -0.6601 REMARK 3 S TENSOR REMARK 3 S11: -0.1144 S12: -0.0171 S13: 0.2644 REMARK 3 S21: 0.1924 S22: 0.0201 S23: 0.1257 REMARK 3 S31: -0.3148 S32: 0.0093 S33: -0.0046 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 158 THROUGH 171 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.2007 13.9303 -34.7960 REMARK 3 T TENSOR REMARK 3 T11: 0.1113 T22: 0.1240 REMARK 3 T33: 0.1593 T12: -0.0185 REMARK 3 T13: -0.0039 T23: -0.0019 REMARK 3 L TENSOR REMARK 3 L11: 0.5285 L22: 0.1325 REMARK 3 L33: 0.3352 L12: 0.2661 REMARK 3 L13: 0.1664 L23: 0.0776 REMARK 3 S TENSOR REMARK 3 S11: -0.0446 S12: -0.0978 S13: -0.1179 REMARK 3 S21: 0.0292 S22: 0.0482 S23: 0.1608 REMARK 3 S31: 0.1400 S32: -0.0966 S33: 0.0010 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 172 THROUGH 178 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.5663 -2.4689 -17.6236 REMARK 3 T TENSOR REMARK 3 T11: 0.7191 T22: 0.3751 REMARK 3 T33: 0.3132 T12: 0.2846 REMARK 3 T13: 0.0427 T23: 0.0846 REMARK 3 L TENSOR REMARK 3 L11: 0.1266 L22: 0.0302 REMARK 3 L33: -0.0053 L12: 0.0638 REMARK 3 L13: -0.0072 L23: -0.0084 REMARK 3 S TENSOR REMARK 3 S11: -0.3691 S12: -0.4675 S13: -0.4814 REMARK 3 S21: 0.8343 S22: 0.3467 S23: -0.3571 REMARK 3 S31: 0.9520 S32: 1.0268 S33: 0.0512 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 19 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.0961 11.3902 -17.6391 REMARK 3 T TENSOR REMARK 3 T11: 0.1633 T22: 0.1044 REMARK 3 T33: 0.1276 T12: -0.0118 REMARK 3 T13: -0.0117 T23: 0.0085 REMARK 3 L TENSOR REMARK 3 L11: 0.4956 L22: 0.3786 REMARK 3 L33: 0.3668 L12: -0.0662 REMARK 3 L13: 0.2987 L23: 0.2307 REMARK 3 S TENSOR REMARK 3 S11: 0.0358 S12: 0.0096 S13: -0.1831 REMARK 3 S21: 0.0571 S22: -0.0146 S23: 0.0797 REMARK 3 S31: 0.3271 S32: 0.0139 S33: -0.0001 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 20 THROUGH 32 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.5051 17.1784 -17.2682 REMARK 3 T TENSOR REMARK 3 T11: 0.1179 T22: 0.1981 REMARK 3 T33: 0.1582 T12: 0.0198 REMARK 3 T13: -0.0097 T23: 0.0271 REMARK 3 L TENSOR REMARK 3 L11: 1.1528 L22: 0.8756 REMARK 3 L33: 1.3693 L12: -0.5941 REMARK 3 L13: 0.9072 L23: 0.1191 REMARK 3 S TENSOR REMARK 3 S11: -0.0770 S12: 0.1508 S13: 0.2400 REMARK 3 S21: 0.0522 S22: -0.0375 S23: -0.3633 REMARK 3 S31: -0.1163 S32: 0.6172 S33: 0.0256 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 33 THROUGH 70 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.5669 43.4291 -19.7843 REMARK 3 T TENSOR REMARK 3 T11: 0.1996 T22: 0.1576 REMARK 3 T33: 0.2367 T12: 0.0019 REMARK 3 T13: 0.0191 T23: 0.0060 REMARK 3 L TENSOR REMARK 3 L11: -0.3608 L22: 0.3365 REMARK 3 L33: 0.0059 L12: -0.1462 REMARK 3 L13: 0.1705 L23: -0.1768 REMARK 3 S TENSOR REMARK 3 S11: 0.0181 S12: -0.0501 S13: 0.0233 REMARK 3 S21: 0.0547 S22: 0.0271 S23: 0.3449 REMARK 3 S31: -0.0442 S32: -0.1483 S33: -0.0004 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 71 THROUGH 107 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.6886 15.5450 -4.7073 REMARK 3 T TENSOR REMARK 3 T11: 0.1666 T22: 0.1671 REMARK 3 T33: 0.0933 T12: 0.0185 REMARK 3 T13: 0.0069 T23: 0.0027 REMARK 3 L TENSOR REMARK 3 L11: 2.0618 L22: 0.8378 REMARK 3 L33: 1.6732 L12: 0.7089 REMARK 3 L13: -0.8516 L23: 0.5572 REMARK 3 S TENSOR REMARK 3 S11: 0.0077 S12: -0.5189 S13: -0.1103 REMARK 3 S21: 0.0998 S22: -0.0047 S23: -0.0459 REMARK 3 S31: 0.2714 S32: 0.1306 S33: 0.0083 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 108 THROUGH 131 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.6180 16.4057 -4.9079 REMARK 3 T TENSOR REMARK 3 T11: 0.2742 T22: 0.2628 REMARK 3 T33: 0.2306 T12: 0.0620 REMARK 3 T13: -0.1130 T23: -0.0004 REMARK 3 L TENSOR REMARK 3 L11: 0.9839 L22: 1.3370 REMARK 3 L33: 1.4824 L12: 0.2922 REMARK 3 L13: -0.6576 L23: -1.1669 REMARK 3 S TENSOR REMARK 3 S11: -0.4002 S12: -0.0570 S13: -0.0597 REMARK 3 S21: -0.8597 S22: 0.2588 S23: 0.0882 REMARK 3 S31: 0.4504 S32: 0.4403 S33: -0.0725 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 132 THROUGH 157 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.4143 22.5934 -10.1025 REMARK 3 T TENSOR REMARK 3 T11: 0.1260 T22: 0.1158 REMARK 3 T33: 0.0972 T12: -0.0055 REMARK 3 T13: 0.0011 T23: 0.0036 REMARK 3 L TENSOR REMARK 3 L11: 0.8549 L22: 1.1114 REMARK 3 L33: 0.7344 L12: -0.7223 REMARK 3 L13: 0.3875 L23: 0.0345 REMARK 3 S TENSOR REMARK 3 S11: -0.0216 S12: -0.1243 S13: -0.0137 REMARK 3 S21: 0.0749 S22: -0.0878 S23: -0.0783 REMARK 3 S31: 0.0144 S32: 0.0030 S33: 0.0002 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 158 THROUGH 171 ) REMARK 3 ORIGIN FOR THE GROUP (A): 6.0631 13.1442 -14.8828 REMARK 3 T TENSOR REMARK 3 T11: 0.1824 T22: 0.1171 REMARK 3 T33: 0.1584 T12: 0.0332 REMARK 3 T13: -0.0218 T23: 0.0192 REMARK 3 L TENSOR REMARK 3 L11: 0.5656 L22: 0.1849 REMARK 3 L33: 0.5294 L12: -0.2106 REMARK 3 L13: 0.1200 L23: -0.2758 REMARK 3 S TENSOR REMARK 3 S11: 0.0446 S12: 0.0209 S13: -0.1728 REMARK 3 S21: -0.2043 S22: -0.0347 S23: -0.0324 REMARK 3 S31: 0.3099 S32: 0.0914 S33: -0.0153 REMARK 3 TLS GROUP : 17 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 172 THROUGH 177 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.6937 1.2129 -31.7949 REMARK 3 T TENSOR REMARK 3 T11: 0.2085 T22: 0.1212 REMARK 3 T33: 0.1720 T12: -0.0154 REMARK 3 T13: -0.0085 T23: -0.0073 REMARK 3 L TENSOR REMARK 3 L11: 0.1177 L22: 0.1905 REMARK 3 L33: 0.0417 L12: -0.0480 REMARK 3 L13: -0.0224 L23: -0.0784 REMARK 3 S TENSOR REMARK 3 S11: -0.0513 S12: 0.0852 S13: 0.0248 REMARK 3 S21: -0.4252 S22: 0.0977 S23: 0.2451 REMARK 3 S31: -0.1279 S32: -0.1151 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 5O9M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-JUN-17. REMARK 100 THE DEPOSITION ID IS D_1200005425. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-FEB-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 72800 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 19.860 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : 0.06600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.43 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 7.60 REMARK 200 R MERGE FOR SHELL (I) : 1.11200 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 1YZ1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M MES PH6.0 AND 20% (W/V) PEG MME REMARK 280 2000, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K 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 23.76350 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 49.66250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.79600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 49.66250 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.76350 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.79600 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 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 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 ASN A 42 REMARK 465 ILE A 43 REMARK 465 ASP A 44 REMARK 465 ASP A 45 REMARK 465 SER A 46 REMARK 465 LEU A 47 REMARK 465 ILE A 48 REMARK 465 GLY A 49 REMARK 465 GLY A 50 REMARK 465 ASN A 51 REMARK 465 ALA A 52 REMARK 465 SER A 53 REMARK 465 ALA A 54 REMARK 465 GLU A 55 REMARK 465 GLY A 56 REMARK 465 PRO A 57 REMARK 465 GLU A 58 REMARK 465 GLY A 59 REMARK 465 GLU A 60 REMARK 465 GLY A 61 REMARK 465 THR A 62 REMARK 465 HIS A 179 REMARK 465 HIS A 180 REMARK 465 ARG B 38 REMARK 465 THR B 39 REMARK 465 GLU B 40 REMARK 465 GLY B 41 REMARK 465 ASN B 42 REMARK 465 ILE B 43 REMARK 465 ASP B 44 REMARK 465 ASP B 45 REMARK 465 SER B 46 REMARK 465 LEU B 47 REMARK 465 ILE B 48 REMARK 465 GLY B 49 REMARK 465 HIS B 178 REMARK 465 HIS B 179 REMARK 465 HIS B 180 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 LYS A 19 CG CD CE NZ REMARK 470 LYS A 34 NZ REMARK 470 GLU A 86 CD OE1 OE2 REMARK 470 LYS A 90 CD CE NZ REMARK 470 LYS A 93 CD CE NZ REMARK 470 LYS A 97 CD CE NZ REMARK 470 LYS A 100 CE NZ REMARK 470 LYS A 102 NZ REMARK 470 GLU A 105 CG CD OE1 OE2 REMARK 470 GLN A 106 CD OE1 NE2 REMARK 470 LYS A 112 CD CE NZ REMARK 470 LYS A 130 CG CD CE NZ REMARK 470 GLU A 153 CB CG CD OE1 OE2 REMARK 470 LYS A 171 CD CE NZ REMARK 470 GLU A 174 CG CD OE1 OE2 REMARK 470 HIS A 177 ND1 CD2 CE1 NE2 REMARK 470 LYS B 19 NZ REMARK 470 ASP B 25 CG OD1 OD2 REMARK 470 GLY B 50 N CA REMARK 470 GLU B 55 CD OE1 OE2 REMARK 470 GLU B 58 CD OE1 OE2 REMARK 470 GLU B 63 CD OE1 OE2 REMARK 470 GLU B 86 CD OE1 OE2 REMARK 470 LYS B 90 CD CE NZ REMARK 470 LYS B 93 CD CE NZ REMARK 470 LYS B 97 CD CE NZ REMARK 470 LYS B 100 CE NZ REMARK 470 LYS B 102 NZ REMARK 470 GLU B 105 CG CD OE1 OE2 REMARK 470 GLN B 106 CG CD OE1 NE2 REMARK 470 ARG B 107 CD NE CZ NH1 NH2 REMARK 470 LYS B 112 CG CD CE NZ REMARK 470 MET B 115 CE REMARK 470 LYS B 130 CD CE NZ REMARK 470 GLU B 153 CG CD OE1 OE2 REMARK 470 MET B 169 CE REMARK 470 LYS B 171 NZ 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 A 231 O HOH A 311 2.07 REMARK 500 OG SER B 82 O HOH B 301 2.10 REMARK 500 O HOH A 207 O HOH A 298 2.13 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 311 O HOH B 442 3544 2.03 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 ASP B 16 30.25 -84.88 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 PEG B 201 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 201 DBREF 5O9M A 1 172 UNP P13693 TCTP_HUMAN 1 172 DBREF 5O9M B 1 172 UNP P13693 TCTP_HUMAN 1 172 SEQADV 5O9M LEU A 173 UNP P13693 EXPRESSION TAG SEQADV 5O9M GLU A 174 UNP P13693 EXPRESSION TAG SEQADV 5O9M HIS A 175 UNP P13693 EXPRESSION TAG SEQADV 5O9M HIS A 176 UNP P13693 EXPRESSION TAG SEQADV 5O9M HIS A 177 UNP P13693 EXPRESSION TAG SEQADV 5O9M HIS A 178 UNP P13693 EXPRESSION TAG SEQADV 5O9M HIS A 179 UNP P13693 EXPRESSION TAG SEQADV 5O9M HIS A 180 UNP P13693 EXPRESSION TAG SEQADV 5O9M LEU B 173 UNP P13693 EXPRESSION TAG SEQADV 5O9M GLU B 174 UNP P13693 EXPRESSION TAG SEQADV 5O9M HIS B 175 UNP P13693 EXPRESSION TAG SEQADV 5O9M HIS B 176 UNP P13693 EXPRESSION TAG SEQADV 5O9M HIS B 177 UNP P13693 EXPRESSION TAG SEQADV 5O9M HIS B 178 UNP P13693 EXPRESSION TAG SEQADV 5O9M HIS B 179 UNP P13693 EXPRESSION TAG SEQADV 5O9M HIS B 180 UNP P13693 EXPRESSION TAG SEQRES 1 A 180 MET ILE ILE TYR ARG ASP LEU ILE SER HIS ASP GLU MET SEQRES 2 A 180 PHE SER ASP ILE TYR LYS ILE ARG GLU ILE ALA ASP GLY SEQRES 3 A 180 LEU CYS LEU GLU VAL GLU GLY LYS MET VAL SER ARG THR SEQRES 4 A 180 GLU GLY ASN ILE ASP ASP SER LEU ILE GLY GLY ASN ALA SEQRES 5 A 180 SER ALA GLU GLY PRO GLU GLY GLU GLY THR GLU SER THR SEQRES 6 A 180 VAL ILE THR GLY VAL ASP ILE VAL MET ASN HIS HIS LEU SEQRES 7 A 180 GLN GLU THR SER PHE THR LYS GLU ALA TYR LYS LYS TYR SEQRES 8 A 180 ILE LYS ASP TYR MET LYS SER ILE LYS GLY LYS LEU GLU SEQRES 9 A 180 GLU GLN ARG PRO GLU ARG VAL LYS PRO PHE MET THR GLY SEQRES 10 A 180 ALA ALA GLU GLN ILE LYS HIS ILE LEU ALA ASN PHE LYS SEQRES 11 A 180 ASN TYR GLN PHE PHE ILE GLY GLU ASN MET ASN PRO ASP SEQRES 12 A 180 GLY MET VAL ALA LEU LEU ASP TYR ARG GLU ASP GLY VAL SEQRES 13 A 180 THR PRO TYR MET ILE PHE PHE LYS ASP GLY LEU GLU MET SEQRES 14 A 180 GLU LYS CYS LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 180 MET ILE ILE TYR ARG ASP LEU ILE SER HIS ASP GLU MET SEQRES 2 B 180 PHE SER ASP ILE TYR LYS ILE ARG GLU ILE ALA ASP GLY SEQRES 3 B 180 LEU CYS LEU GLU VAL GLU GLY LYS MET VAL SER ARG THR SEQRES 4 B 180 GLU GLY ASN ILE ASP ASP SER LEU ILE GLY GLY ASN ALA SEQRES 5 B 180 SER ALA GLU GLY PRO GLU GLY GLU GLY THR GLU SER THR SEQRES 6 B 180 VAL ILE THR GLY VAL ASP ILE VAL MET ASN HIS HIS LEU SEQRES 7 B 180 GLN GLU THR SER PHE THR LYS GLU ALA TYR LYS LYS TYR SEQRES 8 B 180 ILE LYS ASP TYR MET LYS SER ILE LYS GLY LYS LEU GLU SEQRES 9 B 180 GLU GLN ARG PRO GLU ARG VAL LYS PRO PHE MET THR GLY SEQRES 10 B 180 ALA ALA GLU GLN ILE LYS HIS ILE LEU ALA ASN PHE LYS SEQRES 11 B 180 ASN TYR GLN PHE PHE ILE GLY GLU ASN MET ASN PRO ASP SEQRES 12 B 180 GLY MET VAL ALA LEU LEU ASP TYR ARG GLU ASP GLY VAL SEQRES 13 B 180 THR PRO TYR MET ILE PHE PHE LYS ASP GLY LEU GLU MET SEQRES 14 B 180 GLU LYS CYS LEU GLU HIS HIS HIS HIS HIS HIS HET PEG B 201 5 HETNAM PEG DI(HYDROXYETHYL)ETHER FORMUL 3 PEG C4 H10 O3 FORMUL 4 HOH *301(H2 O) HELIX 1 AA1 ASP A 71 HIS A 77 1 7 HELIX 2 AA2 THR A 84 ARG A 107 1 24 HELIX 3 AA3 ARG A 110 ASN A 128 1 19 HELIX 4 AA4 PHE A 129 TYR A 132 5 4 HELIX 5 AA5 GLU B 55 GLY B 59 5 5 HELIX 6 AA6 ASP B 71 HIS B 76 1 6 HELIX 7 AA7 THR B 84 ARG B 107 1 24 HELIX 8 AA8 ARG B 110 ASN B 128 1 19 HELIX 9 AA9 PHE B 129 TYR B 132 5 4 SHEET 1 AA1 3 GLU A 12 SER A 15 0 SHEET 2 AA1 3 ILE A 2 ASP A 6 -1 N TYR A 4 O MET A 13 SHEET 3 AA1 3 LEU A 167 LYS A 171 -1 O GLU A 170 N ILE A 3 SHEET 1 AA2 6 LYS A 19 ILE A 23 0 SHEET 2 AA2 6 CYS A 28 GLU A 32 -1 O GLU A 30 N ARG A 21 SHEET 3 AA2 6 PRO A 158 PHE A 163 -1 O MET A 160 N VAL A 31 SHEET 4 AA2 6 VAL A 146 TYR A 151 -1 N ASP A 150 O TYR A 159 SHEET 5 AA2 6 GLN A 133 ILE A 136 -1 N PHE A 135 O ALA A 147 SHEET 6 AA2 6 GLN A 79 THR A 81 -1 N GLN A 79 O ILE A 136 SHEET 1 AA3 2 MET A 35 GLU A 40 0 SHEET 2 AA3 2 THR A 65 VAL A 70 -1 O ILE A 67 N ARG A 38 SHEET 1 AA4 3 GLU B 12 SER B 15 0 SHEET 2 AA4 3 ILE B 2 ASP B 6 -1 N TYR B 4 O MET B 13 SHEET 3 AA4 3 LEU B 167 LYS B 171 -1 O GLU B 168 N ARG B 5 SHEET 1 AA5 6 LYS B 19 ILE B 23 0 SHEET 2 AA5 6 CYS B 28 GLU B 32 -1 O GLU B 32 N LYS B 19 SHEET 3 AA5 6 PRO B 158 PHE B 163 -1 O MET B 160 N VAL B 31 SHEET 4 AA5 6 ALA B 147 TYR B 151 -1 N ASP B 150 O TYR B 159 SHEET 5 AA5 6 GLN B 133 ILE B 136 -1 N PHE B 135 O ALA B 147 SHEET 6 AA5 6 GLN B 79 THR B 81 -1 N GLN B 79 O ILE B 136 SHEET 1 AA6 2 MET B 35 VAL B 36 0 SHEET 2 AA6 2 GLY B 69 VAL B 70 -1 O GLY B 69 N VAL B 36 SSBOND 1 CYS A 172 CYS B 172 1555 1555 2.04 SITE 1 AC1 4 GLU B 120 LYS B 123 HIS B 124 PRO B 142 CRYST1 47.527 77.592 99.325 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 0.021041 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012888 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010068 0.00000