HEADER TRANSFERASE 19-FEB-19 6QQS 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 6QQS 1 REMARK REVDAT 3 26-AUG-20 6QQS 1 JRNL REVDAT 2 05-AUG-20 6QQS 1 JRNL REVDAT 1 18-MAR-20 6QQS 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. 1.76 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) : 1.76 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 54.15 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 50842 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.670 REMARK 3 FREE R VALUE TEST SET COUNT : 2372 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 54.1801 - 4.5190 1.00 3054 139 0.1665 0.1915 REMARK 3 2 4.5190 - 3.5871 1.00 2884 177 0.1510 0.1863 REMARK 3 3 3.5871 - 3.1337 1.00 2908 119 0.1786 0.2161 REMARK 3 4 3.1337 - 2.8472 1.00 2866 135 0.1983 0.2442 REMARK 3 5 2.8472 - 2.6432 1.00 2843 152 0.2001 0.2418 REMARK 3 6 2.6432 - 2.4873 1.00 2854 144 0.1879 0.2395 REMARK 3 7 2.4873 - 2.3627 1.00 2824 150 0.1712 0.1964 REMARK 3 8 2.3627 - 2.2599 1.00 2807 155 0.1697 0.1805 REMARK 3 9 2.2599 - 2.1729 1.00 2834 156 0.1706 0.2213 REMARK 3 10 2.1729 - 2.0979 1.00 2813 140 0.1785 0.2197 REMARK 3 11 2.0979 - 2.0323 1.00 2792 161 0.1888 0.2595 REMARK 3 12 2.0323 - 1.9742 1.00 2837 112 0.1911 0.2272 REMARK 3 13 1.9742 - 1.9222 1.00 2834 127 0.1858 0.1972 REMARK 3 14 1.9222 - 1.8753 1.00 2849 119 0.1953 0.2254 REMARK 3 15 1.8753 - 1.8327 1.00 2822 127 0.2205 0.2705 REMARK 3 16 1.8327 - 1.7937 1.00 2795 130 0.2482 0.2615 REMARK 3 17 1.7937 - 1.7578 1.00 2854 129 0.2700 0.2824 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) : 0.180 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.120 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 30.88 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.83 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 3273 REMARK 3 ANGLE : 0.984 4492 REMARK 3 CHIRALITY : 0.042 510 REMARK 3 PLANARITY : 0.005 580 REMARK 3 DIHEDRAL : 11.621 1173 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 0 THROUGH 18 ) REMARK 3 ORIGIN FOR THE GROUP (A): -32.2426 13.7853 -22.0704 REMARK 3 T TENSOR REMARK 3 T11: 0.3367 T22: 0.4682 REMARK 3 T33: 0.2868 T12: -0.0092 REMARK 3 T13: 0.0286 T23: 0.0168 REMARK 3 L TENSOR REMARK 3 L11: 1.9266 L22: 3.1230 REMARK 3 L33: 2.7240 L12: -0.3174 REMARK 3 L13: -0.9975 L23: 0.7156 REMARK 3 S TENSOR REMARK 3 S11: 0.0989 S12: 0.8412 S13: -0.1470 REMARK 3 S21: -0.8545 S22: -0.3095 S23: -0.3830 REMARK 3 S31: 0.0999 S32: -0.4936 S33: 0.0265 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 19 THROUGH 83 ) REMARK 3 ORIGIN FOR THE GROUP (A): -36.1824 16.5896 -12.6427 REMARK 3 T TENSOR REMARK 3 T11: 0.2426 T22: 0.3280 REMARK 3 T33: 0.2637 T12: -0.0047 REMARK 3 T13: -0.0210 T23: 0.0428 REMARK 3 L TENSOR REMARK 3 L11: 3.0395 L22: 1.5160 REMARK 3 L33: 2.0526 L12: 0.0020 REMARK 3 L13: -0.9923 L23: 0.0649 REMARK 3 S TENSOR REMARK 3 S11: -0.0099 S12: 0.3730 S13: -0.0159 REMARK 3 S21: -0.2717 S22: 0.0784 S23: 0.1829 REMARK 3 S31: -0.0993 S32: -0.3092 S33: 0.0330 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 84 THROUGH 100 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.8170 4.6270 -12.6489 REMARK 3 T TENSOR REMARK 3 T11: 0.3011 T22: 0.2810 REMARK 3 T33: 0.3150 T12: -0.0039 REMARK 3 T13: 0.0409 T23: -0.0209 REMARK 3 L TENSOR REMARK 3 L11: 2.7578 L22: 2.3224 REMARK 3 L33: 3.4491 L12: 0.3043 REMARK 3 L13: -0.4593 L23: 1.4735 REMARK 3 S TENSOR REMARK 3 S11: -0.1117 S12: 0.0304 S13: -0.4400 REMARK 3 S21: 0.1785 S22: -0.0508 S23: -0.0292 REMARK 3 S31: 0.4405 S32: 0.0766 S33: 0.0484 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 101 THROUGH 183 ) REMARK 3 ORIGIN FOR THE GROUP (A): -24.6524 10.8290 -13.6469 REMARK 3 T TENSOR REMARK 3 T11: 0.2367 T22: 0.2531 REMARK 3 T33: 0.2265 T12: -0.0375 REMARK 3 T13: -0.0210 T23: -0.0312 REMARK 3 L TENSOR REMARK 3 L11: 2.6014 L22: 0.1192 REMARK 3 L33: 1.1675 L12: -0.5390 REMARK 3 L13: -1.5337 L23: 0.0939 REMARK 3 S TENSOR REMARK 3 S11: -0.0587 S12: 0.1213 S13: -0.0928 REMARK 3 S21: -0.0743 S22: 0.0460 S23: 0.0183 REMARK 3 S31: 0.0671 S32: -0.0602 S33: 0.0447 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 184 THROUGH 203 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.1496 4.2014 -41.3408 REMARK 3 T TENSOR REMARK 3 T11: 0.3789 T22: 0.3185 REMARK 3 T33: 0.2853 T12: -0.0634 REMARK 3 T13: 0.0691 T23: -0.0348 REMARK 3 L TENSOR REMARK 3 L11: 1.6277 L22: 2.3692 REMARK 3 L33: 1.8074 L12: -0.8542 REMARK 3 L13: -0.2204 L23: -0.9350 REMARK 3 S TENSOR REMARK 3 S11: 0.0903 S12: 0.2728 S13: 0.0035 REMARK 3 S21: -0.8286 S22: 0.1367 S23: -0.4019 REMARK 3 S31: -0.0597 S32: 0.4052 S33: 0.0003 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 204 THROUGH 227 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.7183 1.9889 -23.9127 REMARK 3 T TENSOR REMARK 3 T11: 0.2522 T22: 0.3162 REMARK 3 T33: 0.2853 T12: 0.0127 REMARK 3 T13: -0.0536 T23: -0.0115 REMARK 3 L TENSOR REMARK 3 L11: 2.1368 L22: 3.5319 REMARK 3 L33: 2.9564 L12: -0.8497 REMARK 3 L13: -1.2896 L23: 2.2450 REMARK 3 S TENSOR REMARK 3 S11: 0.0662 S12: -0.1938 S13: 0.1472 REMARK 3 S21: 0.0886 S22: 0.0955 S23: -0.3977 REMARK 3 S31: 0.0456 S32: 0.1985 S33: -0.0063 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 0 THROUGH 62 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.6247 16.3102 -37.4874 REMARK 3 T TENSOR REMARK 3 T11: 0.3347 T22: 0.3107 REMARK 3 T33: 0.2592 T12: 0.0123 REMARK 3 T13: -0.0535 T23: 0.0123 REMARK 3 L TENSOR REMARK 3 L11: 2.6044 L22: 2.9411 REMARK 3 L33: 1.7603 L12: -1.3668 REMARK 3 L13: -0.5755 L23: 0.5893 REMARK 3 S TENSOR REMARK 3 S11: -0.0800 S12: 0.2983 S13: -0.0037 REMARK 3 S21: -0.3746 S22: -0.0166 S23: 0.4894 REMARK 3 S31: -0.2907 S32: -0.2393 S33: -0.0664 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 63 THROUGH 182 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.6757 19.5396 -26.7951 REMARK 3 T TENSOR REMARK 3 T11: 0.2660 T22: 0.2169 REMARK 3 T33: 0.2394 T12: -0.0237 REMARK 3 T13: -0.0063 T23: -0.0047 REMARK 3 L TENSOR REMARK 3 L11: 1.3354 L22: 1.2479 REMARK 3 L33: 2.0172 L12: -0.3542 REMARK 3 L13: -0.8682 L23: 0.9576 REMARK 3 S TENSOR REMARK 3 S11: 0.0357 S12: 0.0480 S13: 0.2349 REMARK 3 S21: -0.3421 S22: 0.0365 S23: -0.0676 REMARK 3 S31: -0.2718 S32: 0.0144 S33: -0.1534 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 183 THROUGH 232 ) REMARK 3 ORIGIN FOR THE GROUP (A): -22.5940 19.1559 4.5874 REMARK 3 T TENSOR REMARK 3 T11: 0.2824 T22: 0.4319 REMARK 3 T33: 0.2882 T12: 0.0249 REMARK 3 T13: -0.0239 T23: -0.0568 REMARK 3 L TENSOR REMARK 3 L11: 3.2821 L22: 0.8644 REMARK 3 L33: 0.1222 L12: -0.2073 REMARK 3 L13: -0.8839 L23: 0.0569 REMARK 3 S TENSOR REMARK 3 S11: -0.1526 S12: -0.5630 S13: 0.1918 REMARK 3 S21: 0.2489 S22: 0.1805 S23: -0.1439 REMARK 3 S31: 0.0458 S32: 0.1082 S33: -0.0539 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 6QQS 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_1292100701. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-OCT-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 : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9763 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.17 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 50911 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.760 REMARK 200 RESOLUTION RANGE LOW (A) : 74.360 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.600 REMARK 200 R MERGE (I) : 0.05900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.76 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.60 REMARK 200 R MERGE FOR SHELL (I) : 0.90400 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 (%): 48.25 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 37.17850 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 42.76850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.51400 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 42.76850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 37.17850 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.51400 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: 6530 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18440 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 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 SER A 177 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 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 HIS B 45 REMARK 465 LYS B 46 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 CG 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 LEU A 29 CG CD1 CD2 REMARK 470 ARG A 39 CD NE CZ NH1 NH2 REMARK 470 GLU A 77 CG CD OE1 OE2 REMARK 470 VAL A 159 CG1 CG2 REMARK 470 GLU A 180 CG CD OE1 OE2 REMARK 470 ARG A 216 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 14 CG CD OE1 NE2 REMARK 470 ARG B 17 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 31 CG OD1 OD2 REMARK 470 ASP B 43 CG OD1 OD2 REMARK 470 VAL B 44 CG1 CG2 REMARK 470 SER B 47 OG REMARK 470 GLU B 77 CG CD OE1 OE2 REMARK 470 VAL B 159 CG1 CG2 REMARK 470 SER B 177 OG REMARK 470 GLU B 180 CG CD OE1 OE2 REMARK 470 HIS B 204 CG ND1 CD2 CE1 NE2 REMARK 470 ARG B 216 CG CD NE CZ NH1 NH2 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 -128.95 51.33 REMARK 500 PRO B 15 -6.55 -54.58 REMARK 500 HIS B 42 -57.76 -125.91 REMARK 500 TYR B 111 -134.70 55.63 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 494 DISTANCE = 7.25 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue JCZ A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue JCZ B 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6NVR RELATED DB: PDB DBREF 6QQS A 1 242 UNP B1MDI3 B1MDI3_MYCA9 1 242 DBREF 6QQS B 1 242 UNP B1MDI3 B1MDI3_MYCA9 1 242 SEQADV 6QQS GLY A -1 UNP B1MDI3 EXPRESSION TAG SEQADV 6QQS SER A 0 UNP B1MDI3 EXPRESSION TAG SEQADV 6QQS GLY B -1 UNP B1MDI3 EXPRESSION TAG SEQADV 6QQS 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 JCZ A 301 15 HET JCZ B 301 15 HETNAM JCZ 3-(1~{H}-INDOL-6-YL)-1~{H}-PYRAZOL-5-AMINE FORMUL 3 JCZ 2(C11 H10 N4) FORMUL 5 HOH *186(H2 O) HELIX 1 AA1 PHE A 9 TYR A 12 5 4 HELIX 2 AA2 LEU A 13 SER A 19 1 7 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 ARG B 17 5 9 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 THR B 124 1 9 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 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 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 2.08 CISPEP 2 ARG B 186 PRO B 187 0 2.24 SITE 1 AC1 15 PRO A 83 THR A 84 PRO A 85 GLY A 109 SITE 2 AC1 15 ARG A 110 TYR A 111 SER A 132 ILE A 133 SITE 3 AC1 15 GLY A 134 TYR A 136 LEU A 138 ASN A 139 SITE 4 AC1 15 GLY A 140 GLY A 141 HOH A 422 SITE 1 AC2 15 PRO B 83 THR B 84 PRO B 85 GLY B 109 SITE 2 AC2 15 ARG B 110 TYR B 111 SER B 132 ILE B 133 SITE 3 AC2 15 GLY B 134 TYR B 136 LEU B 138 ASN B 139 SITE 4 AC2 15 GLY B 140 GLY B 141 HOH B 420 CRYST1 74.357 79.028 85.537 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 0.013449 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012654 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011691 0.00000