HEADER TRANSFERASE 12-FEB-19 6QOM TITLE CRYSTAL STRUCTURE OF TRMD, A TRNA-(N1G37) METHYLTRANSFERASE, FROM TITLE 2 MYCOBACTERIUM ABSCESSUS IN COMPLEX WITH FRAGMENT 16 (2-AMINO-3- TITLE 3 NITROPYRIDINE) 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 15-MAY-24 6QOM 1 REMARK REVDAT 3 26-AUG-20 6QOM 1 JRNL REVDAT 2 05-AUG-20 6QOM 1 JRNL REVDAT 1 26-FEB-20 6QOM 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. 1.90 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 54.18 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 40735 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.040 REMARK 3 FREE R VALUE TEST SET COUNT : 2054 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 54.1995 - 4.6784 1.00 2756 142 0.1718 0.1893 REMARK 3 2 4.6784 - 3.7137 1.00 2614 159 0.1530 0.1998 REMARK 3 3 3.7137 - 3.2443 1.00 2606 147 0.1930 0.2443 REMARK 3 4 3.2443 - 2.9477 1.00 2546 167 0.2128 0.2396 REMARK 3 5 2.9477 - 2.7364 1.00 2605 135 0.2273 0.2444 REMARK 3 6 2.7364 - 2.5751 1.00 2559 144 0.2170 0.2491 REMARK 3 7 2.5751 - 2.4461 1.00 2563 149 0.2070 0.2571 REMARK 3 8 2.4461 - 2.3397 1.00 2531 152 0.2108 0.2281 REMARK 3 9 2.3397 - 2.2496 1.00 2570 129 0.2021 0.2877 REMARK 3 10 2.2496 - 2.1720 1.00 2552 130 0.2119 0.2771 REMARK 3 11 2.1720 - 2.1040 1.00 2538 140 0.2218 0.2633 REMARK 3 12 2.1040 - 2.0439 1.00 2556 125 0.2279 0.2871 REMARK 3 13 2.0439 - 1.9901 1.00 2552 124 0.2344 0.3095 REMARK 3 14 1.9901 - 1.9415 1.00 2580 95 0.2428 0.2689 REMARK 3 15 1.9415 - 1.8974 1.00 2553 116 0.2643 0.3128 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) : 0.240 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.060 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 37.84 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 47.01 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 3304 REMARK 3 ANGLE : 1.068 4523 REMARK 3 CHIRALITY : 0.046 510 REMARK 3 PLANARITY : 0.005 590 REMARK 3 DIHEDRAL : 13.136 1199 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 0 THROUGH 29 ) REMARK 3 ORIGIN FOR THE GROUP (A): -32.2269 12.1974 -23.4870 REMARK 3 T TENSOR REMARK 3 T11: 0.3475 T22: 0.7384 REMARK 3 T33: 0.3992 T12: -0.0215 REMARK 3 T13: -0.0388 T23: -0.0634 REMARK 3 L TENSOR REMARK 3 L11: 3.2407 L22: 0.2717 REMARK 3 L33: 5.4414 L12: -0.7819 REMARK 3 L13: -2.4255 L23: -0.0018 REMARK 3 S TENSOR REMARK 3 S11: 0.0896 S12: 1.3491 S13: -0.1355 REMARK 3 S21: -0.5765 S22: 0.1198 S23: -0.1870 REMARK 3 S31: 0.0821 S32: -0.6781 S33: -0.0822 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 30 THROUGH 48 ) REMARK 3 ORIGIN FOR THE GROUP (A): -40.1484 20.3270 -15.1752 REMARK 3 T TENSOR REMARK 3 T11: 0.3916 T22: 0.5432 REMARK 3 T33: 0.3291 T12: 0.1303 REMARK 3 T13: -0.0356 T23: 0.0518 REMARK 3 L TENSOR REMARK 3 L11: 5.5000 L22: 4.7486 REMARK 3 L33: 3.4826 L12: -2.0809 REMARK 3 L13: -1.9043 L23: 1.2397 REMARK 3 S TENSOR REMARK 3 S11: 0.2589 S12: 0.7531 S13: -0.0778 REMARK 3 S21: -0.1970 S22: -0.1527 S23: 0.3336 REMARK 3 S31: -0.5490 S32: -0.5601 S33: -0.0522 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 49 THROUGH 83 ) REMARK 3 ORIGIN FOR THE GROUP (A): -34.1940 17.7314 -6.3874 REMARK 3 T TENSOR REMARK 3 T11: 0.2438 T22: 0.3407 REMARK 3 T33: 0.3398 T12: -0.0054 REMARK 3 T13: -0.0081 T23: 0.0177 REMARK 3 L TENSOR REMARK 3 L11: 3.8057 L22: 2.3565 REMARK 3 L33: 3.6805 L12: -1.4383 REMARK 3 L13: -1.8922 L23: 0.7200 REMARK 3 S TENSOR REMARK 3 S11: 0.0405 S12: 0.0096 S13: 0.1225 REMARK 3 S21: -0.0859 S22: 0.1731 S23: -0.0531 REMARK 3 S31: -0.2296 S32: -0.1141 S33: -0.2310 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 84 THROUGH 115 ) REMARK 3 ORIGIN FOR THE GROUP (A): -24.1791 8.9959 -11.9644 REMARK 3 T TENSOR REMARK 3 T11: 0.2992 T22: 0.2693 REMARK 3 T33: 0.3283 T12: -0.0313 REMARK 3 T13: 0.0061 T23: -0.0502 REMARK 3 L TENSOR REMARK 3 L11: 4.9189 L22: 0.5741 REMARK 3 L33: 4.1941 L12: -1.4346 REMARK 3 L13: -2.5358 L23: 0.1037 REMARK 3 S TENSOR REMARK 3 S11: -0.1761 S12: 0.0529 S13: -0.3687 REMARK 3 S21: 0.0165 S22: 0.0769 S23: 0.0298 REMARK 3 S31: 0.3428 S32: 0.0347 S33: 0.0935 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 116 THROUGH 155 ) REMARK 3 ORIGIN FOR THE GROUP (A): -25.2127 11.3901 -11.5507 REMARK 3 T TENSOR REMARK 3 T11: 0.2864 T22: 0.2930 REMARK 3 T33: 0.2921 T12: -0.0353 REMARK 3 T13: -0.0322 T23: -0.0208 REMARK 3 L TENSOR REMARK 3 L11: 3.2175 L22: 0.6665 REMARK 3 L33: 1.3153 L12: -0.8300 REMARK 3 L13: -1.1589 L23: -0.0744 REMARK 3 S TENSOR REMARK 3 S11: 0.0287 S12: 0.0746 S13: -0.1166 REMARK 3 S21: -0.0759 S22: 0.0132 S23: 0.0191 REMARK 3 S31: -0.0012 S32: 0.0564 S33: -0.0224 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 156 THROUGH 203 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.2580 3.4319 -36.7304 REMARK 3 T TENSOR REMARK 3 T11: 0.3805 T22: 0.2805 REMARK 3 T33: 0.2660 T12: -0.0720 REMARK 3 T13: 0.0502 T23: -0.0390 REMARK 3 L TENSOR REMARK 3 L11: 2.0845 L22: 2.3725 REMARK 3 L33: 0.8590 L12: -0.1132 REMARK 3 L13: 0.7075 L23: 1.1416 REMARK 3 S TENSOR REMARK 3 S11: -0.0105 S12: 0.1431 S13: 0.1220 REMARK 3 S21: -0.4772 S22: 0.0173 S23: -0.3392 REMARK 3 S31: 0.0295 S32: 0.2010 S33: 0.0416 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 204 THROUGH 228 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.2484 2.2269 -23.7454 REMARK 3 T TENSOR REMARK 3 T11: 0.3229 T22: 0.3635 REMARK 3 T33: 0.3398 T12: 0.0378 REMARK 3 T13: 0.0074 T23: 0.0077 REMARK 3 L TENSOR REMARK 3 L11: 2.5321 L22: 3.9967 REMARK 3 L33: 2.8567 L12: -0.5918 REMARK 3 L13: -0.1750 L23: 2.2775 REMARK 3 S TENSOR REMARK 3 S11: 0.0318 S12: -0.3950 S13: 0.0444 REMARK 3 S21: -0.0719 S22: 0.1774 S23: -0.6257 REMARK 3 S31: -0.2724 S32: 0.2564 S33: -0.0783 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 0 THROUGH 16 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.9341 21.8705 -32.4917 REMARK 3 T TENSOR REMARK 3 T11: 0.4498 T22: 0.4530 REMARK 3 T33: 0.4105 T12: 0.0587 REMARK 3 T13: 0.0414 T23: -0.0276 REMARK 3 L TENSOR REMARK 3 L11: 3.6999 L22: 4.6520 REMARK 3 L33: 2.7434 L12: 1.8596 REMARK 3 L13: 0.2052 L23: 1.1664 REMARK 3 S TENSOR REMARK 3 S11: 0.2877 S12: -0.2170 S13: 0.7943 REMARK 3 S21: 0.0567 S22: -0.5449 S23: 0.9809 REMARK 3 S31: -0.4229 S32: -0.5582 S33: -0.0541 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 17 THROUGH 48 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.4735 22.2845 -37.5395 REMARK 3 T TENSOR REMARK 3 T11: 0.5031 T22: 0.4147 REMARK 3 T33: 0.3749 T12: 0.1120 REMARK 3 T13: -0.0494 T23: 0.0776 REMARK 3 L TENSOR REMARK 3 L11: 3.5735 L22: 1.9467 REMARK 3 L33: 1.5923 L12: 0.5859 REMARK 3 L13: -1.1069 L23: -1.3836 REMARK 3 S TENSOR REMARK 3 S11: 0.4238 S12: 0.3785 S13: 0.2687 REMARK 3 S21: -0.9028 S22: -0.2355 S23: 0.1081 REMARK 3 S31: -0.8677 S32: -0.6684 S33: -0.3825 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 49 THROUGH 100 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.7188 16.5813 -31.4003 REMARK 3 T TENSOR REMARK 3 T11: 0.4099 T22: 0.2784 REMARK 3 T33: 0.2950 T12: 0.0079 REMARK 3 T13: 0.0697 T23: 0.0043 REMARK 3 L TENSOR REMARK 3 L11: 1.5438 L22: 1.5156 REMARK 3 L33: 1.3154 L12: -0.1604 REMARK 3 L13: -0.6373 L23: 1.3238 REMARK 3 S TENSOR REMARK 3 S11: 0.0457 S12: 0.1200 S13: 0.2992 REMARK 3 S21: -0.3122 S22: 0.0607 S23: -0.2662 REMARK 3 S31: -0.2463 S32: 0.0270 S33: -0.1221 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 101 THROUGH 115 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.9489 17.0383 -32.1664 REMARK 3 T TENSOR REMARK 3 T11: 0.3886 T22: 0.3722 REMARK 3 T33: 0.2883 T12: -0.0104 REMARK 3 T13: 0.0874 T23: 0.0234 REMARK 3 L TENSOR REMARK 3 L11: 4.0166 L22: 1.3726 REMARK 3 L33: 3.6870 L12: -1.9309 REMARK 3 L13: -0.6626 L23: 0.3488 REMARK 3 S TENSOR REMARK 3 S11: 0.0383 S12: 0.1027 S13: -0.2570 REMARK 3 S21: -0.4618 S22: -0.1611 S23: 0.3118 REMARK 3 S31: -0.1533 S32: -0.2207 S33: 0.0151 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 116 THROUGH 131 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.0997 18.4567 -32.9751 REMARK 3 T TENSOR REMARK 3 T11: 0.4414 T22: 0.3526 REMARK 3 T33: 0.4396 T12: -0.0623 REMARK 3 T13: 0.1059 T23: -0.0126 REMARK 3 L TENSOR REMARK 3 L11: 1.1027 L22: 1.6830 REMARK 3 L33: 2.2477 L12: -0.1575 REMARK 3 L13: -1.1327 L23: 1.5580 REMARK 3 S TENSOR REMARK 3 S11: 0.0474 S12: -0.0070 S13: 0.2593 REMARK 3 S21: -0.5841 S22: 0.2731 S23: -0.3133 REMARK 3 S31: -0.2046 S32: 0.4125 S33: -0.1282 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 132 THROUGH 182 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.7796 19.7201 -17.9641 REMARK 3 T TENSOR REMARK 3 T11: 0.2297 T22: 0.2445 REMARK 3 T33: 0.3311 T12: 0.0097 REMARK 3 T13: 0.0076 T23: -0.0381 REMARK 3 L TENSOR REMARK 3 L11: 2.1318 L22: 1.9941 REMARK 3 L33: 2.3818 L12: 0.1199 REMARK 3 L13: -0.1567 L23: -1.2059 REMARK 3 S TENSOR REMARK 3 S11: 0.0270 S12: -0.1435 S13: 0.2500 REMARK 3 S21: -0.2621 S22: 0.0067 S23: -0.1984 REMARK 3 S31: -0.1548 S32: -0.0540 S33: 0.0445 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 183 THROUGH 203 ) REMARK 3 ORIGIN FOR THE GROUP (A): -32.9887 23.0010 6.3777 REMARK 3 T TENSOR REMARK 3 T11: 0.3441 T22: 0.5783 REMARK 3 T33: 0.3975 T12: 0.0102 REMARK 3 T13: 0.0579 T23: -0.1415 REMARK 3 L TENSOR REMARK 3 L11: 3.0000 L22: 1.2864 REMARK 3 L33: 2.4908 L12: -0.2655 REMARK 3 L13: 1.1809 L23: -0.1964 REMARK 3 S TENSOR REMARK 3 S11: 0.0254 S12: -1.1257 S13: 0.6308 REMARK 3 S21: 0.5086 S22: 0.0137 S23: 0.0182 REMARK 3 S31: -0.1102 S32: -0.2279 S33: -0.0402 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 204 THROUGH 222 ) REMARK 3 ORIGIN FOR THE GROUP (A): -17.7937 19.5064 6.0640 REMARK 3 T TENSOR REMARK 3 T11: 0.3454 T22: 0.7641 REMARK 3 T33: 0.4891 T12: 0.0205 REMARK 3 T13: -0.0764 T23: -0.2434 REMARK 3 L TENSOR REMARK 3 L11: 0.8742 L22: 2.3392 REMARK 3 L33: 3.8586 L12: -1.4311 REMARK 3 L13: -1.8794 L23: 3.0297 REMARK 3 S TENSOR REMARK 3 S11: -0.1763 S12: -1.0567 S13: 0.5975 REMARK 3 S21: 0.9000 S22: 0.2284 S23: -0.3542 REMARK 3 S31: 0.4029 S32: 0.1118 S33: -0.2011 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 223 THROUGH 232 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.0173 9.9222 -1.4531 REMARK 3 T TENSOR REMARK 3 T11: 0.3836 T22: 0.4397 REMARK 3 T33: 0.5127 T12: -0.0740 REMARK 3 T13: -0.0276 T23: -0.0743 REMARK 3 L TENSOR REMARK 3 L11: 7.5337 L22: 6.1171 REMARK 3 L33: 5.4466 L12: 1.4406 REMARK 3 L13: 1.7955 L23: 0.0999 REMARK 3 S TENSOR REMARK 3 S11: 0.2236 S12: 0.5594 S13: -1.5186 REMARK 3 S21: 0.0197 S22: 0.0427 S23: -1.0570 REMARK 3 S31: 1.0809 S32: -0.3994 S33: 0.0611 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 6QOM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-FEB-19. REMARK 100 THE DEPOSITION ID IS D_1292100541. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-NOV-15 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 : I24 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9686 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.15 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40803 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 79.590 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.600 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.70 REMARK 200 R MERGE FOR SHELL (I) : 0.89000 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 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 36.97750 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 42.92650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.79600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 42.92650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.97750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.79600 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: 6930 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19120 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -16.0 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 GLN A 18 REMARK 465 SER A 19 REMARK 465 LEU A 20 REMARK 465 PRO A 21 REMARK 465 GLY A 22 REMARK 465 LYS A 23 REMARK 465 ALA A 24 REMARK 465 VAL A 159 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 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 LYS B 23 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 LEU A 13 CG CD1 CD2 REMARK 470 GLN A 14 CG CD OE1 NE2 REMARK 470 ARG A 17 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 25 CG1 CG2 CD1 REMARK 470 ASP A 26 CG OD1 OD2 REMARK 470 LEU A 29 CG CD1 CD2 REMARK 470 LYS A 46 CE NZ REMARK 470 GLN B 14 CD OE1 NE2 REMARK 470 ARG B 17 CD NE CZ NH1 NH2 REMARK 470 LEU B 20 CG CD1 CD2 REMARK 470 ILE B 25 CG1 CG2 CD1 REMARK 470 ASP B 26 CG OD1 OD2 REMARK 470 ARG B 39 CZ NH1 NH2 REMARK 470 VAL B 44 CG1 CG2 REMARK 470 LYS B 46 CE NZ REMARK 470 GLU B 77 CD OE1 OE2 REMARK 470 HIS B 204 ND1 CD2 CE1 NE2 REMARK 470 LYS B 206 CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 PRO A 15 C - N - CA ANGL. DEV. = 12.1 DEGREES REMARK 500 PRO A 15 C - N - CD ANGL. DEV. = -12.8 DEGREES 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 VAL A 16 123.15 69.06 REMARK 500 ASP A 26 69.63 -36.72 REMARK 500 ASP A 115 124.23 -39.54 REMARK 500 PRO A 157 111.89 -35.43 REMARK 500 LEU B 13 31.17 -90.71 REMARK 500 PRO B 15 -17.33 -49.77 REMARK 500 ARG B 17 173.38 -47.80 REMARK 500 GLN B 18 -68.50 -16.66 REMARK 500 THR B 84 138.88 -171.02 REMARK 500 TYR B 111 -121.94 70.50 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 JBE A 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6NVR RELATED DB: PDB DBREF 6QOM A 1 242 UNP B1MDI3 B1MDI3_MYCA9 1 242 DBREF 6QOM B 1 242 UNP B1MDI3 B1MDI3_MYCA9 1 242 SEQADV 6QOM GLY A -1 UNP B1MDI3 EXPRESSION TAG SEQADV 6QOM SER A 0 UNP B1MDI3 EXPRESSION TAG SEQADV 6QOM GLY B -1 UNP B1MDI3 EXPRESSION TAG SEQADV 6QOM 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 JBE A 301 10 HETNAM JBE 3-NITROPYRIDIN-2-AMINE FORMUL 3 JBE C5 H5 N3 O2 FORMUL 4 HOH *132(H2 O) HELIX 1 AA1 ARG A 38 THR A 41 5 4 HELIX 2 AA2 LYS A 62 CYS A 74 1 13 HELIX 3 AA3 THR A 91 SER A 99 1 9 HELIX 4 AA4 ASP A 115 ALA A 123 1 9 HELIX 5 AA5 GLY A 141 ARG A 154 1 14 HELIX 6 AA6 PRO A 196 SER A 201 5 6 HELIX 7 AA7 ASP A 203 ARG A 223 1 21 HELIX 8 AA8 PRO A 224 GLY A 228 5 5 HELIX 9 AA9 PHE B 9 GLN B 14 5 6 HELIX 10 AB1 ARG B 38 THR B 41 5 4 HELIX 11 AB2 LYS B 62 CYS B 74 1 13 HELIX 12 AB3 THR B 91 SER B 99 1 9 HELIX 13 AB4 ASP B 115 THR B 124 1 10 HELIX 14 AB5 GLY B 141 ARG B 154 1 14 HELIX 15 AB6 PRO B 196 SER B 201 5 6 HELIX 16 AB7 ASP B 203 ARG B 223 1 21 HELIX 17 AB8 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 LEU A 104 N LYS A 2 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 3.47 CISPEP 2 ARG B 186 PRO B 187 0 0.19 SITE 1 AC1 11 PRO A 83 THR A 84 PRO A 85 VAL A 131 SITE 2 AC1 11 SER A 132 ILE A 133 GLY A 134 TYR A 136 SITE 3 AC1 11 LEU A 138 GLY A 140 ALA A 144 CRYST1 73.955 79.592 85.853 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 0.013522 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012564 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011648 0.00000