HEADER TRANSFERASE 19-FEB-19 6QQR TITLE CRYSTAL STRUCTURE OF TRMD, A TRNA-(N1G37) METHYLTRANSFERASE, FROM TITLE 2 MYCOBACTERIUM ABSCESSUS IN COMPLEX WITH INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRNA (GUANINE-N(1)-)-METHYLTRANSFERASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: M1G-METHYLTRANSFERASE,TRNA [GM37] METHYLTRANSFERASE; COMPND 5 EC: 2.1.1.228; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM ABSCESSUS; SOURCE 3 ORGANISM_TAXID: 36809; SOURCE 4 ATCC: 19977; SOURCE 5 GENE: TRMD, MAB_3226C; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRMD, TRNA METHYLTRANSFERASE, SPOUT METHYLTRANSFERASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR S.E.THOMAS,A.J.WHITEHOUSE,A.G.COYNE,C.ABELL,V.MENDES,T.L.BLUNDELL REVDAT 2 24-JAN-24 6QQR 1 REMARK REVDAT 1 18-SEP-19 6QQR 0 JRNL AUTH A.J.WHITEHOUSE,S.E.THOMAS,K.P.BROWN,A.FANOURAKIS,D.S.CHAN, JRNL AUTH 2 M.D.J.LIBARDO,V.MENDES,H.I.M.BOSHOFF,R.A.FLOTO,C.ABELL, JRNL AUTH 3 T.L.BLUNDELL,A.G.COYNE JRNL TITL DEVELOPMENT OF INHIBITORS AGAINSTMYCOBACTERIUM ABSCESSUSTRNA JRNL TITL 2 (M1G37) METHYLTRANSFERASE (TRMD) USING FRAGMENT-BASED JRNL TITL 3 APPROACHES. JRNL REF J.MED.CHEM. V. 62 7210 2019 JRNL REFN ISSN 0022-2623 JRNL PMID 31282680 JRNL DOI 10.1021/ACS.JMEDCHEM.9B00809 REMARK 2 REMARK 2 RESOLUTION. 1.56 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) : 1.56 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 58.17 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 72299 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : 0.203 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.950 REMARK 3 FREE R VALUE TEST SET COUNT : 3580 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 58.2133 - 4.6175 0.99 2826 144 0.1867 0.1807 REMARK 3 2 4.6175 - 3.6652 1.00 2729 143 0.1529 0.1645 REMARK 3 3 3.6652 - 3.2020 1.00 2699 128 0.1808 0.2214 REMARK 3 4 3.2020 - 2.9092 1.00 2685 122 0.1921 0.2215 REMARK 3 5 2.9092 - 2.7007 1.00 2679 127 0.1915 0.2278 REMARK 3 6 2.7007 - 2.5415 1.00 2648 148 0.1919 0.2297 REMARK 3 7 2.5415 - 2.4142 1.00 2648 155 0.1864 0.2463 REMARK 3 8 2.4142 - 2.3091 1.00 2637 141 0.1811 0.2012 REMARK 3 9 2.3091 - 2.2202 1.00 2655 137 0.1777 0.1907 REMARK 3 10 2.2202 - 2.1436 1.00 2613 144 0.1753 0.1925 REMARK 3 11 2.1436 - 2.0765 1.00 2645 131 0.1768 0.1968 REMARK 3 12 2.0765 - 2.0172 1.00 2614 149 0.1780 0.1910 REMARK 3 13 2.0172 - 1.9641 1.00 2621 139 0.1719 0.1827 REMARK 3 14 1.9641 - 1.9162 1.00 2590 158 0.1680 0.2236 REMARK 3 15 1.9162 - 1.8726 1.00 2627 159 0.1789 0.2138 REMARK 3 16 1.8726 - 1.8327 1.00 2607 129 0.1839 0.1854 REMARK 3 17 1.8327 - 1.7961 1.00 2600 149 0.1886 0.2219 REMARK 3 18 1.7961 - 1.7622 1.00 2652 119 0.1879 0.2306 REMARK 3 19 1.7622 - 1.7307 1.00 2637 136 0.1904 0.1969 REMARK 3 20 1.7307 - 1.7014 1.00 2616 139 0.1936 0.2156 REMARK 3 21 1.7014 - 1.6739 1.00 2595 132 0.2027 0.2405 REMARK 3 22 1.6739 - 1.6482 1.00 2614 130 0.2053 0.2176 REMARK 3 23 1.6482 - 1.6239 1.00 2617 133 0.2177 0.2377 REMARK 3 24 1.6239 - 1.6011 1.00 2621 122 0.2291 0.2593 REMARK 3 25 1.6011 - 1.5794 1.00 2610 138 0.2415 0.2586 REMARK 3 26 1.5794 - 1.5589 1.00 2634 128 0.2480 0.2589 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) : 19.310 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 26.37 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.19 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 : 0.006 3337 REMARK 3 ANGLE : 1.038 4575 REMARK 3 CHIRALITY : 0.042 524 REMARK 3 PLANARITY : 0.006 591 REMARK 3 DIHEDRAL : 11.553 1203 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 15 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 0 THROUGH 17 ) REMARK 3 ORIGIN FOR THE GROUP (A): -32.1833 -13.3663 21.5506 REMARK 3 T TENSOR REMARK 3 T11: 0.2886 T22: 0.3344 REMARK 3 T33: 0.2901 T12: 0.0265 REMARK 3 T13: 0.0061 T23: -0.0178 REMARK 3 L TENSOR REMARK 3 L11: 0.3336 L22: 0.1260 REMARK 3 L33: 0.5557 L12: -0.0288 REMARK 3 L13: -0.1598 L23: -0.2380 REMARK 3 S TENSOR REMARK 3 S11: -0.0088 S12: -0.3224 S13: 0.1575 REMARK 3 S21: 0.1107 S22: -0.0423 S23: -0.0733 REMARK 3 S31: -0.0815 S32: -0.1430 S33: -0.0000 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 18 THROUGH 29 ) REMARK 3 ORIGIN FOR THE GROUP (A): -32.7393 -1.9992 31.0225 REMARK 3 T TENSOR REMARK 3 T11: 0.5731 T22: 0.6218 REMARK 3 T33: 0.6521 T12: 0.0354 REMARK 3 T13: 0.0600 T23: -0.1180 REMARK 3 L TENSOR REMARK 3 L11: -0.0048 L22: 0.0589 REMARK 3 L33: 0.0164 L12: -0.0173 REMARK 3 L13: 0.0020 L23: 0.0378 REMARK 3 S TENSOR REMARK 3 S11: 0.4354 S12: -0.2569 S13: 0.3902 REMARK 3 S21: 0.0093 S22: 0.1232 S23: 0.7113 REMARK 3 S31: -0.2159 S32: -0.2755 S33: 0.0014 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 30 THROUGH 48 ) REMARK 3 ORIGIN FOR THE GROUP (A): -40.3246 -20.0568 15.1638 REMARK 3 T TENSOR REMARK 3 T11: 0.2470 T22: 0.3047 REMARK 3 T33: 0.2652 T12: -0.0335 REMARK 3 T13: 0.0206 T23: 0.0272 REMARK 3 L TENSOR REMARK 3 L11: 0.9568 L22: 0.4895 REMARK 3 L33: 0.6633 L12: -0.4186 REMARK 3 L13: 0.1186 L23: -0.6039 REMARK 3 S TENSOR REMARK 3 S11: 0.0775 S12: -0.2288 S13: 0.0018 REMARK 3 S21: -0.0000 S22: 0.0140 S23: 0.2022 REMARK 3 S31: 0.0515 S32: -0.2595 S33: 0.0002 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 49 THROUGH 83 ) REMARK 3 ORIGIN FOR THE GROUP (A): -34.2021 -17.8451 6.3460 REMARK 3 T TENSOR REMARK 3 T11: 0.2214 T22: 0.2515 REMARK 3 T33: 0.2680 T12: -0.0033 REMARK 3 T13: -0.0157 T23: -0.0036 REMARK 3 L TENSOR REMARK 3 L11: 0.7865 L22: 0.4063 REMARK 3 L33: 1.1681 L12: 0.5448 REMARK 3 L13: 0.3803 L23: -0.0597 REMARK 3 S TENSOR REMARK 3 S11: -0.0309 S12: 0.0614 S13: -0.1035 REMARK 3 S21: 0.1710 S22: 0.0722 S23: -0.0617 REMARK 3 S31: 0.1219 S32: -0.0473 S33: 0.0000 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 84 THROUGH 100 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.6460 -4.5190 12.5776 REMARK 3 T TENSOR REMARK 3 T11: 0.2596 T22: 0.2251 REMARK 3 T33: 0.2685 T12: -0.0156 REMARK 3 T13: -0.0225 T23: -0.0309 REMARK 3 L TENSOR REMARK 3 L11: 0.2913 L22: 0.1092 REMARK 3 L33: 0.4860 L12: 0.0078 REMARK 3 L13: 0.1693 L23: -0.1870 REMARK 3 S TENSOR REMARK 3 S11: -0.0616 S12: 0.1654 S13: 0.1183 REMARK 3 S21: -0.0605 S22: -0.0581 S23: -0.0331 REMARK 3 S31: -0.1748 S32: 0.1897 S33: 0.0000 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 101 THROUGH 115 ) REMARK 3 ORIGIN FOR THE GROUP (A): -29.4008 -14.0663 11.0409 REMARK 3 T TENSOR REMARK 3 T11: 0.2153 T22: 0.2546 REMARK 3 T33: 0.2662 T12: 0.0344 REMARK 3 T13: -0.0157 T23: -0.0213 REMARK 3 L TENSOR REMARK 3 L11: 0.5528 L22: 0.2503 REMARK 3 L33: 1.2931 L12: 0.2644 REMARK 3 L13: 0.3311 L23: -0.3194 REMARK 3 S TENSOR REMARK 3 S11: -0.0217 S12: 0.0147 S13: 0.0449 REMARK 3 S21: 0.2002 S22: 0.0274 S23: -0.1429 REMARK 3 S31: 0.1705 S32: 0.1017 S33: 0.0002 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 116 THROUGH 131 ) REMARK 3 ORIGIN FOR THE GROUP (A): -31.1388 -9.3531 2.6660 REMARK 3 T TENSOR REMARK 3 T11: 0.2256 T22: 0.2329 REMARK 3 T33: 0.2495 T12: -0.0024 REMARK 3 T13: 0.0104 T23: 0.0169 REMARK 3 L TENSOR REMARK 3 L11: 0.1478 L22: -0.0022 REMARK 3 L33: 0.1715 L12: -0.0272 REMARK 3 L13: 0.1981 L23: -0.0723 REMARK 3 S TENSOR REMARK 3 S11: -0.0509 S12: 0.1259 S13: 0.1192 REMARK 3 S21: 0.0274 S22: 0.0001 S23: -0.1293 REMARK 3 S31: -0.0572 S32: -0.0110 S33: -0.0000 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 132 THROUGH 155 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.8717 -12.6007 18.3516 REMARK 3 T TENSOR REMARK 3 T11: 0.2320 T22: 0.2352 REMARK 3 T33: 0.2419 T12: 0.0118 REMARK 3 T13: -0.0182 T23: -0.0316 REMARK 3 L TENSOR REMARK 3 L11: 0.8597 L22: 0.5762 REMARK 3 L33: 0.4251 L12: -0.1507 REMARK 3 L13: 0.0767 L23: -0.5990 REMARK 3 S TENSOR REMARK 3 S11: -0.0361 S12: -0.0584 S13: -0.0710 REMARK 3 S21: 0.0718 S22: 0.0217 S23: 0.0449 REMARK 3 S31: 0.0489 S32: -0.0106 S33: -0.0000 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 156 THROUGH 182 ) REMARK 3 ORIGIN FOR THE GROUP (A): -11.5573 -0.7225 25.0821 REMARK 3 T TENSOR REMARK 3 T11: 0.3499 T22: 0.0093 REMARK 3 T33: 0.2751 T12: -0.0328 REMARK 3 T13: 0.0480 T23: -0.2829 REMARK 3 L TENSOR REMARK 3 L11: 0.7763 L22: 1.3933 REMARK 3 L33: 3.4170 L12: -0.4541 REMARK 3 L13: 0.1320 L23: -1.9057 REMARK 3 S TENSOR REMARK 3 S11: -0.1715 S12: -0.1302 S13: 0.4784 REMARK 3 S21: 0.6052 S22: -0.5503 S23: 0.1107 REMARK 3 S31: -0.2005 S32: 0.5541 S33: -0.8610 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 183 THROUGH 203 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.8074 -4.3928 41.1875 REMARK 3 T TENSOR REMARK 3 T11: 0.3388 T22: 0.2848 REMARK 3 T33: 0.2856 T12: 0.0339 REMARK 3 T13: -0.0448 T23: -0.0103 REMARK 3 L TENSOR REMARK 3 L11: 0.5265 L22: 0.2567 REMARK 3 L33: 0.2530 L12: 0.2026 REMARK 3 L13: 0.0078 L23: 0.2138 REMARK 3 S TENSOR REMARK 3 S11: 0.1182 S12: -0.0242 S13: -0.0924 REMARK 3 S21: 0.2869 S22: -0.0022 S23: -0.1601 REMARK 3 S31: 0.0792 S32: 0.2156 S33: -0.0001 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 204 THROUGH 227 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.0519 -1.9720 24.1155 REMARK 3 T TENSOR REMARK 3 T11: 0.2748 T22: 0.3092 REMARK 3 T33: 0.2530 T12: -0.0337 REMARK 3 T13: 0.0308 T23: -0.0266 REMARK 3 L TENSOR REMARK 3 L11: 0.6712 L22: 0.3184 REMARK 3 L33: 0.1365 L12: -0.4727 REMARK 3 L13: 0.2422 L23: 0.1098 REMARK 3 S TENSOR REMARK 3 S11: 0.0075 S12: 0.1007 S13: -0.1202 REMARK 3 S21: -0.0410 S22: 0.0244 S23: -0.2236 REMARK 3 S31: 0.0550 S32: 0.1234 S33: 0.0001 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 0 THROUGH 62 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.4828 -17.9762 35.8851 REMARK 3 T TENSOR REMARK 3 T11: 0.2919 T22: 0.2939 REMARK 3 T33: 0.2128 T12: -0.0342 REMARK 3 T13: 0.0185 T23: 0.0010 REMARK 3 L TENSOR REMARK 3 L11: 1.3830 L22: 1.2654 REMARK 3 L33: 0.9380 L12: -0.4957 REMARK 3 L13: 0.1329 L23: 0.1829 REMARK 3 S TENSOR REMARK 3 S11: -0.0288 S12: -0.1611 S13: -0.0417 REMARK 3 S21: 0.0428 S22: -0.1158 S23: 0.3678 REMARK 3 S31: 0.1490 S32: -0.3005 S33: -0.0001 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 63 THROUGH 131 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.9387 -19.5170 30.4494 REMARK 3 T TENSOR REMARK 3 T11: 0.2670 T22: 0.2083 REMARK 3 T33: 0.2331 T12: 0.0258 REMARK 3 T13: -0.0227 T23: -0.0069 REMARK 3 L TENSOR REMARK 3 L11: 1.2277 L22: 0.9624 REMARK 3 L33: 1.1679 L12: 0.4643 REMARK 3 L13: 0.7607 L23: 0.6111 REMARK 3 S TENSOR REMARK 3 S11: 0.0783 S12: -0.0625 S13: -0.1012 REMARK 3 S21: 0.1316 S22: 0.0386 S23: -0.0832 REMARK 3 S31: 0.0993 S32: -0.0117 S33: 0.0001 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 132 THROUGH 181 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.7102 -19.8978 18.5676 REMARK 3 T TENSOR REMARK 3 T11: 0.2197 T22: 0.2163 REMARK 3 T33: 0.2328 T12: -0.0009 REMARK 3 T13: 0.0031 T23: -0.0197 REMARK 3 L TENSOR REMARK 3 L11: 1.2992 L22: 0.7132 REMARK 3 L33: 0.8756 L12: 0.0216 REMARK 3 L13: 0.3318 L23: -0.8582 REMARK 3 S TENSOR REMARK 3 S11: 0.0082 S12: 0.0000 S13: -0.0747 REMARK 3 S21: 0.1011 S22: 0.0403 S23: -0.1076 REMARK 3 S31: 0.0232 S32: 0.0505 S33: -0.0002 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 182 THROUGH 231 ) REMARK 3 ORIGIN FOR THE GROUP (A): -22.5605 -19.5103 -4.6220 REMARK 3 T TENSOR REMARK 3 T11: 0.2570 T22: 0.4092 REMARK 3 T33: 0.2813 T12: -0.0375 REMARK 3 T13: 0.0492 T23: -0.0884 REMARK 3 L TENSOR REMARK 3 L11: 0.8186 L22: 0.8441 REMARK 3 L33: -0.3167 L12: -0.0818 REMARK 3 L13: 0.6417 L23: 0.0213 REMARK 3 S TENSOR REMARK 3 S11: -0.1079 S12: 0.3177 S13: -0.2215 REMARK 3 S21: -0.2610 S22: 0.1414 S23: -0.1344 REMARK 3 S31: -0.0830 S32: 0.0781 S33: 0.0001 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 6QQR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-FEB-19. REMARK 100 THE DEPOSITION ID IS D_1292100700. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-APR-16 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 : DIAMOND REMARK 200 BEAMLINE : I02 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9865 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.23 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 72378 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.560 REMARK 200 RESOLUTION RANGE LOW (A) : 86.360 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.700 REMARK 200 R MERGE (I) : 0.03600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 26.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.56 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.80 REMARK 200 R MERGE FOR SHELL (I) : 0.78100 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 2.5.7 REMARK 200 STARTING MODEL: 6NVR REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.08M SODIUM CACODYLATE PH 6.5 -7.0, 1 REMARK 280 -2 M AMMONIUM SULPHATE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 292K 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 36.89000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 43.17850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.35550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 43.17850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.89000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.35550 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6860 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 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 GLY A -1 REMARK 465 LEU A 160 REMARK 465 GLY A 161 REMARK 465 ASN A 162 REMARK 465 ALA A 163 REMARK 465 LEU A 164 REMARK 465 SER A 165 REMARK 465 ALA A 166 REMARK 465 GLN A 167 REMARK 465 GLU A 168 REMARK 465 ASP A 169 REMARK 465 SER A 170 REMARK 465 HIS A 171 REMARK 465 SER A 172 REMARK 465 GLU A 173 REMARK 465 GLY A 174 REMARK 465 MET A 175 REMARK 465 ALA A 176 REMARK 465 GLY A 228 REMARK 465 PHE A 229 REMARK 465 ASP A 230 REMARK 465 SER A 231 REMARK 465 PRO A 232 REMARK 465 THR A 233 REMARK 465 GLY A 234 REMARK 465 GLU A 235 REMARK 465 HIS A 236 REMARK 465 GLY A 237 REMARK 465 GLY A 238 REMARK 465 ASP A 239 REMARK 465 GLY A 240 REMARK 465 LEU A 241 REMARK 465 SER A 242 REMARK 465 GLY B -1 REMARK 465 GLY B 161 REMARK 465 ASN B 162 REMARK 465 ALA B 163 REMARK 465 LEU B 164 REMARK 465 SER B 165 REMARK 465 ALA B 166 REMARK 465 GLN B 167 REMARK 465 GLU B 168 REMARK 465 ASP B 169 REMARK 465 SER B 170 REMARK 465 HIS B 171 REMARK 465 SER B 172 REMARK 465 GLU B 173 REMARK 465 GLY B 174 REMARK 465 MET B 175 REMARK 465 ALA B 176 REMARK 465 PRO B 232 REMARK 465 THR B 233 REMARK 465 GLY B 234 REMARK 465 GLU B 235 REMARK 465 HIS B 236 REMARK 465 GLY B 237 REMARK 465 GLY B 238 REMARK 465 ASP B 239 REMARK 465 GLY B 240 REMARK 465 LEU B 241 REMARK 465 SER B 242 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 11 CD OE1 OE2 REMARK 470 GLN A 14 CG CD OE1 NE2 REMARK 470 ARG A 17 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 18 CG CD OE1 NE2 REMARK 470 LYS A 23 CG CD CE NZ REMARK 470 ASP A 26 CG OD1 OD2 REMARK 470 LEU A 29 CG CD1 CD2 REMARK 470 GLU A 77 CD OE1 OE2 REMARK 470 SER A 177 OG REMARK 470 GLU A 180 OE1 OE2 REMARK 470 ARG B 17 NE CZ NH1 NH2 REMARK 470 SER B 19 OG REMARK 470 LYS B 23 CD CE NZ REMARK 470 ASP B 31 OD1 OD2 REMARK 470 ARG B 39 NE CZ NH1 NH2 REMARK 470 VAL B 44 CG1 CG2 REMARK 470 HIS B 45 CG ND1 CD2 CE1 NE2 REMARK 470 LYS B 46 CG CD CE NZ REMARK 470 GLU B 77 CD OE1 OE2 REMARK 470 GLU B 93 CD OE1 OE2 REMARK 470 ARG B 125 CG CD NE CZ NH1 NH2 REMARK 470 LEU B 160 CG CD1 CD2 REMARK 470 SER B 177 OG REMARK 470 PRO B 182 O REMARK 470 HIS B 204 ND1 CD2 CE1 NE2 REMARK 470 LYS B 206 CE NZ REMARK 470 GLN B 217 CD OE1 NE2 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 VAL A 16 -27.30 -149.37 REMARK 500 SER A 19 -19.72 -169.50 REMARK 500 ARG A 223 59.40 -140.52 REMARK 500 SER B 19 -132.49 50.84 REMARK 500 TYR B 111 -137.87 53.85 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue JDN B 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6NVR RELATED DB: PDB DBREF 6QQR A 1 242 UNP B1MDI3 B1MDI3_MYCA9 1 242 DBREF 6QQR B 1 242 UNP B1MDI3 B1MDI3_MYCA9 1 242 SEQADV 6QQR GLY A -1 UNP B1MDI3 EXPRESSION TAG SEQADV 6QQR SER A 0 UNP B1MDI3 EXPRESSION TAG SEQADV 6QQR GLY B -1 UNP B1MDI3 EXPRESSION TAG SEQADV 6QQR SER B 0 UNP B1MDI3 EXPRESSION TAG SEQRES 1 A 244 GLY SER MET LYS ILE ASP VAL VAL THR ILE PHE PRO GLU SEQRES 2 A 244 TYR LEU GLN PRO VAL ARG GLN SER LEU PRO GLY LYS ALA SEQRES 3 A 244 ILE ASP ALA GLY LEU VAL ASP VAL ALA VAL HIS ASP LEU SEQRES 4 A 244 ARG ARG TRP THR HIS ASP VAL HIS LYS SER VAL ASP ASP SEQRES 5 A 244 SER PRO TYR GLY GLY GLY PRO GLY MET VAL MET LYS PRO SEQRES 6 A 244 THR VAL TRP GLY ASP ALA LEU ASP GLU ILE CYS THR SER SEQRES 7 A 244 GLU THR LEU LEU VAL VAL PRO THR PRO ALA GLY TYR PRO SEQRES 8 A 244 PHE THR GLN GLU THR ALA TRP GLN TRP SER THR GLU ASP SEQRES 9 A 244 HIS LEU VAL ILE ALA CYS GLY ARG TYR GLU GLY ILE ASP SEQRES 10 A 244 GLN ARG VAL ALA ASP ASP ALA ALA THR ARG MET ARG VAL SEQRES 11 A 244 ARG GLU VAL SER ILE GLY ASP TYR VAL LEU ASN GLY GLY SEQRES 12 A 244 GLU ALA ALA ALA LEU VAL ILE ILE GLU ALA VAL LEU ARG SEQRES 13 A 244 LEU VAL PRO GLY VAL LEU GLY ASN ALA LEU SER ALA GLN SEQRES 14 A 244 GLU ASP SER HIS SER GLU GLY MET ALA SER LEU LEU GLU SEQRES 15 A 244 GLY PRO SER TYR THR ARG PRO PRO SER TRP ARG GLY MET SEQRES 16 A 244 ASP VAL PRO PRO VAL LEU LEU SER GLY ASP HIS ALA LYS SEQRES 17 A 244 ILE ALA ALA TRP ARG ALA GLU GLN SER ARG GLN ARG THR SEQRES 18 A 244 ILE GLU ARG ARG PRO ASP LEU LEU GLY PHE ASP SER PRO SEQRES 19 A 244 THR GLY GLU HIS GLY GLY ASP GLY LEU SER SEQRES 1 B 244 GLY SER MET LYS ILE ASP VAL VAL THR ILE PHE PRO GLU SEQRES 2 B 244 TYR LEU GLN PRO VAL ARG GLN SER LEU PRO GLY LYS ALA SEQRES 3 B 244 ILE ASP ALA GLY LEU VAL ASP VAL ALA VAL HIS ASP LEU SEQRES 4 B 244 ARG ARG TRP THR HIS ASP VAL HIS LYS SER VAL ASP ASP SEQRES 5 B 244 SER PRO TYR GLY GLY GLY PRO GLY MET VAL MET LYS PRO SEQRES 6 B 244 THR VAL TRP GLY ASP ALA LEU ASP GLU ILE CYS THR SER SEQRES 7 B 244 GLU THR LEU LEU VAL VAL PRO THR PRO ALA GLY TYR PRO SEQRES 8 B 244 PHE THR GLN GLU THR ALA TRP GLN TRP SER THR GLU ASP SEQRES 9 B 244 HIS LEU VAL ILE ALA CYS GLY ARG TYR GLU GLY ILE ASP SEQRES 10 B 244 GLN ARG VAL ALA ASP ASP ALA ALA THR ARG MET ARG VAL SEQRES 11 B 244 ARG GLU VAL SER ILE GLY ASP TYR VAL LEU ASN GLY GLY SEQRES 12 B 244 GLU ALA ALA ALA LEU VAL ILE ILE GLU ALA VAL LEU ARG SEQRES 13 B 244 LEU VAL PRO GLY VAL LEU GLY ASN ALA LEU SER ALA GLN SEQRES 14 B 244 GLU ASP SER HIS SER GLU GLY MET ALA SER LEU LEU GLU SEQRES 15 B 244 GLY PRO SER TYR THR ARG PRO PRO SER TRP ARG GLY MET SEQRES 16 B 244 ASP VAL PRO PRO VAL LEU LEU SER GLY ASP HIS ALA LYS SEQRES 17 B 244 ILE ALA ALA TRP ARG ALA GLU GLN SER ARG GLN ARG THR SEQRES 18 B 244 ILE GLU ARG ARG PRO ASP LEU LEU GLY PHE ASP SER PRO SEQRES 19 B 244 THR GLY GLU HIS GLY GLY ASP GLY LEU SER HET JDN B 301 12 HETNAM JDN 1~{H}-INDOL-5-YLBORONIC ACID FORMUL 3 JDN C8 H8 B N O2 FORMUL 4 HOH *294(H2 O) HELIX 1 AA1 PHE A 9 TYR A 12 5 4 HELIX 2 AA2 LEU A 13 GLN A 18 1 6 HELIX 3 AA3 PRO A 21 ALA A 27 1 7 HELIX 4 AA4 ARG A 38 THR A 41 5 4 HELIX 5 AA5 LYS A 62 CYS A 74 1 13 HELIX 6 AA6 THR A 91 SER A 99 1 9 HELIX 7 AA7 ASP A 115 ALA A 123 1 9 HELIX 8 AA8 GLY A 141 ARG A 154 1 14 HELIX 9 AA9 PRO A 196 SER A 201 5 6 HELIX 10 AB1 ASP A 203 ARG A 223 1 21 HELIX 11 AB2 PRO A 224 LEU A 227 5 4 HELIX 12 AB3 PHE B 9 ARG B 17 5 9 HELIX 13 AB4 GLN B 18 ALA B 27 1 10 HELIX 14 AB5 ARG B 38 THR B 41 5 4 HELIX 15 AB6 LYS B 62 CYS B 74 1 13 HELIX 16 AB7 THR B 91 SER B 99 1 9 HELIX 17 AB8 GLN B 116 THR B 124 1 9 HELIX 18 AB9 GLY B 141 ARG B 154 1 14 HELIX 19 AC1 PRO B 196 SER B 201 5 6 HELIX 20 AC2 ASP B 203 ARG B 223 1 21 HELIX 21 AC3 PRO B 224 GLY B 228 5 5 SHEET 1 AA1 6 VAL A 30 ASP A 36 0 SHEET 2 AA1 6 MET A 1 THR A 7 1 N VAL A 5 O HIS A 35 SHEET 3 AA1 6 HIS A 103 ALA A 107 1 O ILE A 106 N ASP A 4 SHEET 4 AA1 6 LEU A 79 PRO A 83 1 N VAL A 81 O VAL A 105 SHEET 5 AA1 6 ARG A 127 SER A 132 1 O ARG A 129 N LEU A 80 SHEET 6 AA1 6 TYR A 88 PRO A 89 1 N TYR A 88 O GLU A 130 SHEET 1 AA2 2 ASP A 49 ASP A 50 0 SHEET 2 AA2 2 VAL A 60 MET A 61 -1 O VAL A 60 N ASP A 50 SHEET 1 AA3 2 SER A 189 TRP A 190 0 SHEET 2 AA3 2 MET A 193 ASP A 194 -1 O MET A 193 N TRP A 190 SHEET 1 AA4 6 VAL B 30 ASP B 36 0 SHEET 2 AA4 6 MET B 1 THR B 7 1 N VAL B 5 O HIS B 35 SHEET 3 AA4 6 HIS B 103 ALA B 107 1 O ILE B 106 N ASP B 4 SHEET 4 AA4 6 LEU B 79 PRO B 83 1 N VAL B 81 O VAL B 105 SHEET 5 AA4 6 ARG B 127 SER B 132 1 O ARG B 129 N LEU B 80 SHEET 6 AA4 6 TYR B 88 PRO B 89 1 N TYR B 88 O SER B 132 SHEET 1 AA5 2 ASP B 49 ASP B 50 0 SHEET 2 AA5 2 VAL B 60 MET B 61 -1 O VAL B 60 N ASP B 50 SHEET 1 AA6 2 SER B 189 TRP B 190 0 SHEET 2 AA6 2 MET B 193 ASP B 194 -1 O MET B 193 N TRP B 190 CISPEP 1 ARG A 186 PRO A 187 0 3.80 CISPEP 2 ARG B 186 PRO B 187 0 3.34 SITE 1 AC1 13 PRO B 83 THR B 84 PRO B 85 GLY B 109 SITE 2 AC1 13 TYR B 111 TYR B 136 VAL B 137 LEU B 138 SITE 3 AC1 13 ASN B 139 GLY B 141 HOH B 423 HOH B 476 SITE 4 AC1 13 HOH B 501 CRYST1 73.780 78.711 86.357 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 0.013554 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012705 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011580 0.00000