HEADER TRANSFERASE 19-FEB-19 6QQY 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 4 24-JAN-24 6QQY 1 REMARK REVDAT 3 26-AUG-20 6QQY 1 JRNL REVDAT 2 05-AUG-20 6QQY 1 JRNL REVDAT 1 18-MAR-20 6QQY 0 JRNL AUTH S.E.THOMAS,A.J.WHITEHOUSE,K.BROWN,S.BURBAUD, JRNL AUTH 2 J.M.BELARDINELLI,J.SANGEN,R.LAHIRI,M.D.J.LIBARDO,P.GUPTA, JRNL AUTH 3 S.MALHOTRA,H.I.M.BOSHOFF,M.JACKSON,C.ABELL,A.G.COYNE, JRNL AUTH 4 T.L.BLUNDELL,R.A.FLOTO,V.MENDES JRNL TITL FRAGMENT-BASED DISCOVERY OF A NEW CLASS OF INHIBITORS JRNL TITL 2 TARGETING MYCOBACTERIAL TRNA MODIFICATION. JRNL REF NUCLEIC ACIDS RES. V. 48 8099 2020 JRNL REFN ESSN 1362-4962 JRNL PMID 32602532 JRNL DOI 10.1093/NAR/GKAA539 REMARK 2 REMARK 2 RESOLUTION. 1.49 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) : 1.49 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 54.03 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 82867 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.190 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.970 REMARK 3 FREE R VALUE TEST SET COUNT : 4117 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 54.0612 - 4.5769 1.00 2900 171 0.1694 0.1740 REMARK 3 2 4.5769 - 3.6330 1.00 2791 159 0.1460 0.1598 REMARK 3 3 3.6330 - 3.1739 1.00 2748 168 0.1728 0.1807 REMARK 3 4 3.1739 - 2.8837 1.00 2743 160 0.1847 0.2168 REMARK 3 5 2.8837 - 2.6770 1.00 2752 142 0.1882 0.1924 REMARK 3 6 2.6770 - 2.5192 1.00 2697 155 0.1825 0.1967 REMARK 3 7 2.5192 - 2.3930 1.00 2748 135 0.1809 0.2249 REMARK 3 8 2.3930 - 2.2888 1.00 2749 131 0.1718 0.1942 REMARK 3 9 2.2888 - 2.2007 1.00 2701 136 0.1689 0.1969 REMARK 3 10 2.2007 - 2.1248 1.00 2726 129 0.1693 0.1818 REMARK 3 11 2.1248 - 2.0583 1.00 2713 151 0.1713 0.1819 REMARK 3 12 2.0583 - 1.9995 1.00 2712 138 0.1755 0.1805 REMARK 3 13 1.9995 - 1.9469 1.00 2705 157 0.1694 0.2077 REMARK 3 14 1.9469 - 1.8994 1.00 2692 139 0.1749 0.2026 REMARK 3 15 1.8994 - 1.8562 1.00 2700 143 0.1726 0.1872 REMARK 3 16 1.8562 - 1.8167 1.00 2689 138 0.1735 0.1934 REMARK 3 17 1.8167 - 1.7803 1.00 2724 129 0.1700 0.2020 REMARK 3 18 1.7803 - 1.7467 1.00 2684 140 0.1806 0.1920 REMARK 3 19 1.7467 - 1.7155 1.00 2720 122 0.1881 0.2172 REMARK 3 20 1.7155 - 1.6865 1.00 2647 146 0.1944 0.2384 REMARK 3 21 1.6865 - 1.6593 1.00 2717 136 0.2079 0.1973 REMARK 3 22 1.6593 - 1.6337 1.00 2724 133 0.2138 0.2327 REMARK 3 23 1.6337 - 1.6097 1.00 2695 125 0.2076 0.2566 REMARK 3 24 1.6097 - 1.5870 1.00 2679 123 0.2192 0.2275 REMARK 3 25 1.5870 - 1.5656 1.00 2685 136 0.2262 0.2515 REMARK 3 26 1.5656 - 1.5452 1.00 2697 142 0.2415 0.2549 REMARK 3 27 1.5452 - 1.5259 1.00 2644 165 0.2567 0.2735 REMARK 3 28 1.5259 - 1.5075 1.00 2700 143 0.2699 0.2684 REMARK 3 29 1.5075 - 1.4900 1.00 2668 125 0.2943 0.3534 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) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.900 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.82 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.51 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 3399 REMARK 3 ANGLE : 1.045 4669 REMARK 3 CHIRALITY : 0.041 523 REMARK 3 PLANARITY : 0.006 605 REMARK 3 DIHEDRAL : 13.758 1236 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 -1 THROUGH 18 ) REMARK 3 ORIGIN FOR THE GROUP (A): -32.2069 12.9895 -22.1215 REMARK 3 T TENSOR REMARK 3 T11: 0.3196 T22: 0.3546 REMARK 3 T33: 0.2488 T12: 0.0091 REMARK 3 T13: 0.0023 T23: -0.0146 REMARK 3 L TENSOR REMARK 3 L11: 0.2244 L22: 0.0463 REMARK 3 L33: 0.1667 L12: -0.0091 REMARK 3 L13: -0.0126 L23: -0.0448 REMARK 3 S TENSOR REMARK 3 S11: 0.1128 S12: 0.5363 S13: -0.2062 REMARK 3 S21: -0.3952 S22: -0.3074 S23: 0.0674 REMARK 3 S31: 0.2070 S32: -0.1790 S33: -0.0002 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 19 THROUGH 62 ) REMARK 3 ORIGIN FOR THE GROUP (A): -35.9660 18.5976 -14.6768 REMARK 3 T TENSOR REMARK 3 T11: 0.2371 T22: 0.2731 REMARK 3 T33: 0.2614 T12: -0.0030 REMARK 3 T13: -0.0140 T23: 0.0041 REMARK 3 L TENSOR REMARK 3 L11: 1.1070 L22: 0.2959 REMARK 3 L33: 0.5980 L12: 0.0029 REMARK 3 L13: 0.0114 L23: -0.2203 REMARK 3 S TENSOR REMARK 3 S11: 0.0433 S12: 0.1476 S13: -0.0172 REMARK 3 S21: -0.1377 S22: 0.0985 S23: 0.0234 REMARK 3 S31: -0.0948 S32: -0.0849 S33: -0.0000 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 63 THROUGH 155 ) REMARK 3 ORIGIN FOR THE GROUP (A): -27.8394 10.3732 -11.1308 REMARK 3 T TENSOR REMARK 3 T11: 0.2017 T22: 0.1938 REMARK 3 T33: 0.2072 T12: -0.0175 REMARK 3 T13: -0.0040 T23: -0.0127 REMARK 3 L TENSOR REMARK 3 L11: 1.4737 L22: 0.1578 REMARK 3 L33: 0.8126 L12: -0.1884 REMARK 3 L13: -0.6573 L23: -0.1335 REMARK 3 S TENSOR REMARK 3 S11: -0.0514 S12: -0.0025 S13: -0.0638 REMARK 3 S21: -0.0238 S22: 0.0311 S23: 0.0137 REMARK 3 S31: 0.0632 S32: -0.0538 S33: -0.0001 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 156 THROUGH 178 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.7932 -0.6295 -26.6753 REMARK 3 T TENSOR REMARK 3 T11: 0.5160 T22: 0.3747 REMARK 3 T33: 0.3839 T12: 0.0172 REMARK 3 T13: -0.1103 T23: -0.1192 REMARK 3 L TENSOR REMARK 3 L11: 0.0464 L22: 0.1361 REMARK 3 L33: 0.0814 L12: 0.0003 REMARK 3 L13: 0.0105 L23: -0.1211 REMARK 3 S TENSOR REMARK 3 S11: -0.0432 S12: 0.4837 S13: -0.3474 REMARK 3 S21: -0.1890 S22: -0.2446 S23: 0.1186 REMARK 3 S31: 0.1979 S32: 0.0832 S33: -0.0173 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 179 THROUGH 203 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.6417 4.2848 -39.2830 REMARK 3 T TENSOR REMARK 3 T11: 0.3211 T22: 0.2458 REMARK 3 T33: 0.2388 T12: -0.0346 REMARK 3 T13: 0.0392 T23: -0.0143 REMARK 3 L TENSOR REMARK 3 L11: 0.4603 L22: 0.4253 REMARK 3 L33: 0.2851 L12: -0.2058 REMARK 3 L13: 0.2364 L23: 0.1604 REMARK 3 S TENSOR REMARK 3 S11: 0.0535 S12: -0.0323 S13: 0.0724 REMARK 3 S21: -0.2026 S22: 0.0971 S23: -0.1632 REMARK 3 S31: -0.0589 S32: 0.1605 S33: 0.0004 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 204 THROUGH 227 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.8557 2.0916 -23.9047 REMARK 3 T TENSOR REMARK 3 T11: 0.2705 T22: 0.3055 REMARK 3 T33: 0.2690 T12: 0.0400 REMARK 3 T13: -0.0281 T23: -0.0356 REMARK 3 L TENSOR REMARK 3 L11: 0.4703 L22: 0.1495 REMARK 3 L33: 0.1527 L12: 0.2029 REMARK 3 L13: -0.2222 L23: 0.1022 REMARK 3 S TENSOR REMARK 3 S11: -0.0859 S12: -0.1370 S13: 0.1746 REMARK 3 S21: 0.0022 S22: 0.1662 S23: -0.2010 REMARK 3 S31: 0.0069 S32: 0.3392 S33: 0.0002 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 0 THROUGH 62 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.7576 15.5168 -38.0321 REMARK 3 T TENSOR REMARK 3 T11: 0.2900 T22: 0.2856 REMARK 3 T33: 0.2105 T12: 0.0253 REMARK 3 T13: -0.0364 T23: 0.0017 REMARK 3 L TENSOR REMARK 3 L11: 1.3608 L22: 0.4809 REMARK 3 L33: 0.5738 L12: 0.2682 REMARK 3 L13: -0.6131 L23: -0.1822 REMARK 3 S TENSOR REMARK 3 S11: 0.0174 S12: 0.3390 S13: -0.0339 REMARK 3 S21: -0.2360 S22: -0.0748 S23: 0.3392 REMARK 3 S31: -0.0957 S32: -0.2254 S33: -0.0003 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 63 THROUGH 115 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.6690 20.1959 -29.7583 REMARK 3 T TENSOR REMARK 3 T11: 0.2894 T22: 0.2086 REMARK 3 T33: 0.2429 T12: -0.0160 REMARK 3 T13: 0.0226 T23: 0.0006 REMARK 3 L TENSOR REMARK 3 L11: 0.6880 L22: 0.3617 REMARK 3 L33: 0.7460 L12: -0.3274 REMARK 3 L13: -0.5864 L23: 0.5629 REMARK 3 S TENSOR REMARK 3 S11: 0.0736 S12: 0.0510 S13: 0.1131 REMARK 3 S21: -0.1858 S22: 0.0428 S23: -0.0990 REMARK 3 S31: -0.1878 S32: 0.0043 S33: 0.0001 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 116 THROUGH 131 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.3284 18.0229 -32.6691 REMARK 3 T TENSOR REMARK 3 T11: 0.2930 T22: 0.2386 REMARK 3 T33: 0.2649 T12: -0.0525 REMARK 3 T13: 0.0569 T23: -0.0290 REMARK 3 L TENSOR REMARK 3 L11: 0.0275 L22: 0.1428 REMARK 3 L33: 0.0456 L12: -0.0365 REMARK 3 L13: 0.0103 L23: 0.0270 REMARK 3 S TENSOR REMARK 3 S11: 0.0836 S12: -0.0217 S13: 0.0693 REMARK 3 S21: -0.2319 S22: 0.1321 S23: -0.0890 REMARK 3 S31: -0.1072 S32: 0.1831 S33: 0.0002 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 132 THROUGH 155 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.6982 17.1601 -22.0539 REMARK 3 T TENSOR REMARK 3 T11: 0.2255 T22: 0.2220 REMARK 3 T33: 0.2448 T12: -0.0006 REMARK 3 T13: -0.0001 T23: -0.0137 REMARK 3 L TENSOR REMARK 3 L11: 0.2533 L22: 0.1011 REMARK 3 L33: 0.2360 L12: 0.0906 REMARK 3 L13: -0.1883 L23: -0.1624 REMARK 3 S TENSOR REMARK 3 S11: 0.0553 S12: 0.0666 S13: 0.0868 REMARK 3 S21: -0.0391 S22: -0.0893 S23: 0.0939 REMARK 3 S31: 0.0340 S32: -0.0685 S33: -0.0000 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 156 THROUGH 182 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.4830 25.2995 -7.2061 REMARK 3 T TENSOR REMARK 3 T11: 0.2775 T22: 0.2659 REMARK 3 T33: 0.4371 T12: -0.0039 REMARK 3 T13: -0.0536 T23: 0.0207 REMARK 3 L TENSOR REMARK 3 L11: 0.0966 L22: 0.1050 REMARK 3 L33: 0.1147 L12: 0.0767 REMARK 3 L13: -0.0240 L23: 0.0785 REMARK 3 S TENSOR REMARK 3 S11: -0.0770 S12: -0.3492 S13: 0.1665 REMARK 3 S21: 0.0123 S22: -0.1260 S23: -0.3386 REMARK 3 S31: -0.3059 S32: 0.2326 S33: -0.0051 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 183 THROUGH 203 ) REMARK 3 ORIGIN FOR THE GROUP (A): -33.2194 22.7236 6.4139 REMARK 3 T TENSOR REMARK 3 T11: 0.2397 T22: 0.3094 REMARK 3 T33: 0.2387 T12: 0.0125 REMARK 3 T13: 0.0025 T23: -0.0582 REMARK 3 L TENSOR REMARK 3 L11: 0.1001 L22: 0.0837 REMARK 3 L33: 0.2190 L12: -0.0546 REMARK 3 L13: -0.1127 L23: 0.1306 REMARK 3 S TENSOR REMARK 3 S11: 0.0310 S12: -0.3052 S13: 0.2472 REMARK 3 S21: 0.1278 S22: -0.0276 S23: 0.1089 REMARK 3 S31: 0.1375 S32: -0.0893 S33: 0.0001 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 204 THROUGH 222 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.1651 20.1123 5.9216 REMARK 3 T TENSOR REMARK 3 T11: 0.2295 T22: 0.4789 REMARK 3 T33: 0.3355 T12: 0.0362 REMARK 3 T13: -0.0706 T23: -0.0891 REMARK 3 L TENSOR REMARK 3 L11: 0.2337 L22: 0.0144 REMARK 3 L33: 0.4917 L12: 0.0521 REMARK 3 L13: -0.3928 L23: -0.0735 REMARK 3 S TENSOR REMARK 3 S11: -0.1317 S12: -0.4181 S13: 0.3171 REMARK 3 S21: 0.5101 S22: 0.2127 S23: -0.4977 REMARK 3 S31: 0.3063 S32: 0.0495 S33: -0.0270 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 223 THROUGH 232 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.9789 9.7601 -1.7096 REMARK 3 T TENSOR REMARK 3 T11: 0.2642 T22: 0.3078 REMARK 3 T33: 0.3450 T12: -0.0420 REMARK 3 T13: -0.0385 T23: -0.0217 REMARK 3 L TENSOR REMARK 3 L11: 0.0837 L22: 0.0005 REMARK 3 L33: 0.0031 L12: -0.0152 REMARK 3 L13: -0.0202 L23: 0.0023 REMARK 3 S TENSOR REMARK 3 S11: 0.0760 S12: 0.2210 S13: -0.3120 REMARK 3 S21: -0.1121 S22: 0.1069 S23: -0.1504 REMARK 3 S31: 0.2428 S32: -0.4343 S33: -0.0009 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 6QQY 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_1292100707. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-JAN-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 : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 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 0.5.31 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 82944 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.490 REMARK 200 RESOLUTION RANGE LOW (A) : 57.970 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 8.800 REMARK 200 R MERGE (I) : 0.04400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.49 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 8.70 REMARK 200 R MERGE FOR SHELL (I) : 1.62200 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 (%): 48.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.38 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 37.25500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 43.02000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.22500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 43.02000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 37.25500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.22500 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: 6780 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18420 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 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 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 ARG B 17 REMARK 465 GLN B 18 REMARK 465 SER B 19 REMARK 465 LEU B 20 REMARK 465 PRO B 21 REMARK 465 GLY B 22 REMARK 465 LYS B 23 REMARK 465 ALA B 24 REMARK 465 ILE B 25 REMARK 465 ASP B 26 REMARK 465 ALA B 27 REMARK 465 LEU B 160 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 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 GLN A 14 CD OE1 NE2 REMARK 470 ARG A 17 CZ NH1 NH2 REMARK 470 GLN A 18 CG CD OE1 NE2 REMARK 470 LYS A 23 CG CD CE NZ REMARK 470 GLU A 93 CD OE1 OE2 REMARK 470 SER A 177 OG REMARK 470 GLU B 11 CG CD OE1 OE2 REMARK 470 GLN B 14 CG CD OE1 NE2 REMARK 470 LEU B 29 CG CD1 CD2 REMARK 470 ASP B 31 CG OD1 OD2 REMARK 470 ARG B 39 CG CD 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 VAL B 159 CG1 CG2 REMARK 470 SER B 177 OG 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 TYR A 111 -134.38 57.32 REMARK 500 PRO B 15 -4.13 -59.62 REMARK 500 TYR B 111 -134.31 55.00 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 JD2 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue JD2 B 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6NVR RELATED DB: PDB DBREF 6QQY A 1 242 UNP B1MDI3 B1MDI3_MYCA9 1 242 DBREF 6QQY B 1 242 UNP B1MDI3 B1MDI3_MYCA9 1 242 SEQADV 6QQY GLY A -1 UNP B1MDI3 EXPRESSION TAG SEQADV 6QQY SER A 0 UNP B1MDI3 EXPRESSION TAG SEQADV 6QQY GLY B -1 UNP B1MDI3 EXPRESSION TAG SEQADV 6QQY 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 JD2 A 301 24 HET JD2 B 301 24 HETNAM JD2 5-AZANYL-3-[1-(PYRIDIN-2-YLMETHYL)INDOL-6-YL]-1~{H}- HETNAM 2 JD2 PYRAZOLE-4-CARBONITRILE FORMUL 3 JD2 2(C18 H14 N6) FORMUL 5 HOH *326(H2 O) HELIX 1 AA1 PHE A 9 TYR A 12 5 4 HELIX 2 AA2 LEU A 13 LEU A 20 1 8 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 GLN A 116 ALA A 123 1 8 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 GLN B 14 5 6 HELIX 13 AB4 ARG B 38 THR B 41 5 4 HELIX 14 AB5 LYS B 62 CYS B 74 1 13 HELIX 15 AB6 THR B 91 SER B 99 1 9 HELIX 16 AB7 GLN B 116 ALA B 123 1 8 HELIX 17 AB8 GLY B 141 ARG B 154 1 14 HELIX 18 AB9 PRO B 196 SER B 201 5 6 HELIX 19 AC1 ASP B 203 ARG B 223 1 21 HELIX 20 AC2 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 SER A 132 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 GLU B 130 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 0.94 CISPEP 2 ARG A 186 PRO A 187 0 1.40 CISPEP 3 ARG B 186 PRO B 187 0 2.50 SITE 1 AC1 20 PRO A 83 THR A 84 PRO A 85 GLY A 109 SITE 2 AC1 20 ARG A 110 TYR A 111 GLU A 112 VAL A 131 SITE 3 AC1 20 SER A 132 ILE A 133 GLY A 134 TYR A 136 SITE 4 AC1 20 VAL A 137 LEU A 138 ASN A 139 GLY A 140 SITE 5 AC1 20 GLY A 141 ALA A 144 HOH A 524 GLU B 180 SITE 1 AC2 20 GLU A 180 PRO B 83 THR B 84 PRO B 85 SITE 2 AC2 20 GLY B 109 ARG B 110 TYR B 111 GLU B 112 SITE 3 AC2 20 VAL B 131 SER B 132 ILE B 133 GLY B 134 SITE 4 AC2 20 TYR B 136 VAL B 137 LEU B 138 ASN B 139 SITE 5 AC2 20 GLY B 140 GLY B 141 ALA B 144 HOH B 497 CRYST1 74.510 78.450 86.040 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 0.013421 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012747 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011623 0.00000