0.013682 0.000000 0.000134 0.000000 0.019685 0.000000 0.000000 0.000000 0.017218 0.00000 0.00000 0.00000 0000-0002-7617-8345 Zhong, W. Pasunooti, K.K. Balamkundu, S. Wong, Y.W. Nah, Q. Liu, C.F. Lescar, J. Dedon, P.C. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 90.56 90.00 73.090 50.800 58.081 C23 H28 N4 O2 S 424.559 N-[(4-{[cyclohexyl(ethyl)amino]methyl}phenyl)methyl]-4-oxo-3,4-dihydrothieno[2,3-d]pyrimidine-5-carboxamide non-polymer C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking H2 O 18.015 WATER non-polymer C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C11 H12 N2 O2 204.225 y TRYPTOPHAN L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking N 1 N C N 2 N C N 3 N C N 4 N C N 5 N C N 6 N C N 7 N N N 8 N C N 9 N C N 10 N C Y 11 N C Y 12 N C Y 13 N C Y 14 N C Y 15 N C Y 16 N C N 17 N C N 18 N N N 19 N C N 20 N O Y 21 N C Y 22 N C N 23 N C N 24 N O N 25 N N N 26 N C N 27 N N Y 28 N C Y 29 N S Y 30 N C N 31 N H N 32 N H N 33 N H N 34 N H N 35 N H N 36 N H N 37 N H N 38 N H N 39 N H N 40 N H N 41 N H N 42 N H N 43 N H N 44 N H N 45 N H N 46 N H N 47 N H N 48 N H N 49 N H N 50 N H N 51 N H N 52 N H N 53 N H N 54 N H N 55 N H N 56 N H N 57 N H N 58 N H N 59 N N N 60 S C N 61 N C N 62 N O N 63 N C N 64 N O N 65 N H N 66 N H N 67 N H N 68 N H N 69 N H N 70 N H N 71 N H N 72 N N N 73 S C N 74 N C N 75 N O N 76 N C N 77 N C N 78 N C N 79 N N N 80 N C N 81 N N N 82 N N N 83 N O N 84 N H N 85 N H N 86 N H N 87 N H N 88 N H N 89 N H N 90 N H N 91 N H N 92 N H N 93 N H N 94 N H N 95 N H N 96 N H N 97 N H N 98 N H N 99 N N N 100 S C N 101 N C N 102 N O N 103 N C N 104 N C N 105 N O N 106 N N N 107 N O N 108 N H N 109 N H N 110 N H N 111 N H N 112 N H N 113 N H N 114 N H N 115 N H N 116 N N N 117 S C N 118 N C N 119 N O N 120 N C N 121 N C N 122 N O N 123 N O N 124 N O N 125 N H N 126 N H N 127 N H N 128 N H N 129 N H N 130 N H N 131 N H N 132 N N N 133 R C N 134 N C N 135 N O N 136 N C N 137 N S N 138 N O N 139 N H N 140 N H N 141 N H N 142 N H N 143 N H N 144 N H N 145 N H N 146 N N N 147 S C N 148 N C N 149 N O N 150 N C N 151 N C N 152 N C N 153 N O N 154 N N N 155 N O N 156 N H N 157 N H N 158 N H N 159 N H N 160 N H N 161 N H N 162 N H N 163 N H N 164 N H N 165 N H N 166 N N N 167 S C N 168 N C N 169 N O N 170 N C N 171 N C N 172 N C N 173 N O N 174 N O N 175 N O N 176 N H N 177 N H N 178 N H N 179 N H N 180 N H N 181 N H N 182 N H N 183 N H N 184 N H N 185 N N N 186 N C N 187 N C N 188 N O N 189 N O N 190 N H N 191 N H N 192 N H N 193 N H N 194 N H N 195 N N N 196 S C N 197 N C N 198 N O N 199 N C Y 200 N C Y 201 N N Y 202 N C Y 203 N C Y 204 N N N 205 N O N 206 N H N 207 N H N 208 N H N 209 N H N 210 N H N 211 N H N 212 N H N 213 N H N 214 N H N 215 N H N 216 N O N 217 N H N 218 N H N 219 N N N 220 S C N 221 N C N 222 N O N 223 S C N 224 N C N 225 N C N 226 N C N 227 N O N 228 N H N 229 N H N 230 N H N 231 N H N 232 N H N 233 N H N 234 N H N 235 N H N 236 N H N 237 N H N 238 N H N 239 N H N 240 N H N 241 N N N 242 S C N 243 N C N 244 N O N 245 N C N 246 N C N 247 N C N 248 N C N 249 N O N 250 N H N 251 N H N 252 N H N 253 N H N 254 N H N 255 N H N 256 N H N 257 N H N 258 N H N 259 N H N 260 N H N 261 N H N 262 N H N 263 N N N 264 S C N 265 N C N 266 N O N 267 N C N 268 N C N 269 N C N 270 N C N 271 N N N 272 N O N 273 N H N 274 N H N 275 N H N 276 N H N 277 N H N 278 N H N 279 N H N 280 N H N 281 N H N 282 N H N 283 N H N 284 N H N 285 N H N 286 N H N 287 N H N 288 N N N 289 S C N 290 N C N 291 N O N 292 N C N 293 N C N 294 N S N 295 N C N 296 N O N 297 N H N 298 N H N 299 N H N 300 N H N 301 N H N 302 N H N 303 N H N 304 N H N 305 N H N 306 N H N 307 N H N 308 N N N 309 S C N 310 N C N 311 N O N 312 N C Y 313 N C Y 314 N C Y 315 N C Y 316 N C Y 317 N C Y 318 N C N 319 N O N 320 N H N 321 N H N 322 N H N 323 N H N 324 N H N 325 N H N 326 N H N 327 N H N 328 N H N 329 N H N 330 N H N 331 N N N 332 S C N 333 N C N 334 N O N 335 N C N 336 N C N 337 N C N 338 N O N 339 N H N 340 N H N 341 N H N 342 N H N 343 N H N 344 N H N 345 N H N 346 N H N 347 N H N 348 N N N 349 S C N 350 N C N 351 N O N 352 N C N 353 N O N 354 N O N 355 N H N 356 N H N 357 N H N 358 N H N 359 N H N 360 N H N 361 N H N 362 N N N 363 S C N 364 N C N 365 N O N 366 R C N 367 N O N 368 N C N 369 N O N 370 N H N 371 N H N 372 N H N 373 N H N 374 N H N 375 N H N 376 N H N 377 N H N 378 N H N 379 N N N 380 S C N 381 N C N 382 N O N 383 N C Y 384 N C Y 385 N C Y 386 N C Y 387 N N Y 388 N C Y 389 N C Y 390 N C Y 391 N C Y 392 N C N 393 N O N 394 N H N 395 N H N 396 N H N 397 N H N 398 N H N 399 N H N 400 N H N 401 N H N 402 N H N 403 N H N 404 N H N 405 N H N 406 N N N 407 S C N 408 N C N 409 N O N 410 N C Y 411 N C Y 412 N C Y 413 N C Y 414 N C Y 415 N C Y 416 N C N 417 N O N 418 N O N 419 N H N 420 N H N 421 N H N 422 N H N 423 N H N 424 N H N 425 N H N 426 N H N 427 N H N 428 N H N 429 N H N 430 N N N 431 S C N 432 N C N 433 N O N 434 N C N 435 N C N 436 N C N 437 N O N 438 N H N 439 N H N 440 N H N 441 N H N 442 N H N 443 N H N 444 N H N 445 N H N 446 N H N 447 N H N 448 N H N 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N sing N 6 N sing N 7 N sing N 8 N sing N 9 N sing N 10 N sing N 11 N sing Y 12 N doub Y 13 N sing Y 14 N sing Y 15 N doub Y 16 N doub Y 17 N sing N 18 N sing N 19 N sing N 20 N sing N 21 N doub N 22 N doub N 23 N sing N 24 N sing N 25 N sing Y 26 N sing Y 27 N doub Y 28 N doub N 29 N sing Y 30 N sing Y 31 N sing N 32 N sing N 33 N doub N 34 N sing N 35 N sing N 36 N sing N 37 N sing N 38 N sing N 39 N sing N 40 N sing N 41 N sing N 42 N sing N 43 N sing N 44 N sing N 45 N sing N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N sing N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N sing N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N sing N 67 N sing N 68 N doub N 69 N sing N 70 N sing N 71 N sing N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N sing N 77 N sing N 78 N sing N 79 N sing N 80 N doub N 81 N sing N 82 N sing N 83 N sing N 84 N sing N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N sing N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N doub N 95 N sing N 96 N sing N 97 N sing N 98 N sing N 99 N sing N 100 N sing N 101 N sing N 102 N sing N 103 N sing N 104 N sing N 105 N sing N 106 N doub N 107 N sing N 108 N sing N 109 N sing N 110 N sing N 111 N doub N 112 N sing N 113 N sing N 114 N sing N 115 N sing N 116 N sing N 117 N sing N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N doub N 123 N sing N 124 N sing N 125 N sing N 126 N sing N 127 N doub N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N sing N 134 N sing N 135 N sing N 136 N sing N 137 N doub N 138 N sing N 139 N sing N 140 N sing N 141 N sing N 142 N sing N 143 N sing N 144 N sing N 145 N sing N 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N doub N 151 N sing N 152 N sing N 153 N sing N 154 N sing N 155 N sing N 156 N sing N 157 N sing N 158 N doub N 159 N sing N 160 N sing N 161 N sing N 162 N sing N 163 N sing N 164 N sing N 165 N sing N 166 N sing N 167 N sing N 168 N sing N 169 N doub N 170 N sing N 171 N sing N 172 N sing N 173 N sing N 174 N sing N 175 N sing N 176 N sing N 177 N doub N 178 N sing N 179 N sing N 180 N sing N 181 N sing N 182 N sing N 183 N sing N 184 N sing N 185 N sing N 186 N sing N 187 N doub N 188 N sing N 189 N sing N 190 N sing N 191 N sing N 192 N sing N 193 N sing N 194 N sing N 195 N sing N 196 N doub N 197 N sing N 198 N sing N 199 N sing N 200 N sing Y 201 N sing Y 202 N doub Y 203 N doub N 204 N sing Y 205 N sing N 206 N sing Y 207 N sing N 208 N sing N 209 N sing N 210 N sing N 211 N sing N 212 N sing N 213 N sing N 214 N sing N 215 N sing N 216 N sing N 217 N sing N 218 N sing N 219 N doub N 220 N sing N 221 N sing N 222 N sing N 223 N sing N 224 N sing N 225 N sing N 226 N sing N 227 N sing N 228 N sing N 229 N sing N 230 N sing N 231 N sing N 232 N sing N 233 N sing N 234 N sing N 235 N sing N 236 N sing N 237 N sing N 238 N sing N 239 N sing N 240 N doub N 241 N sing N 242 N sing N 243 N sing N 244 N sing N 245 N sing N 246 N sing N 247 N sing N 248 N sing N 249 N sing N 250 N sing N 251 N sing N 252 N sing N 253 N sing N 254 N sing N 255 N sing N 256 N sing N 257 N sing N 258 N sing N 259 N sing N 260 N sing N 261 N doub N 262 N sing N 263 N sing N 264 N sing N 265 N sing N 266 N sing N 267 N sing N 268 N sing N 269 N sing N 270 N sing N 271 N sing N 272 N sing N 273 N sing N 274 N sing N 275 N sing N 276 N sing N 277 N sing N 278 N sing N 279 N sing N 280 N sing N 281 N sing N 282 N sing N 283 N sing N 284 N sing N 285 N doub N 286 N sing N 287 N sing N 288 N sing N 289 N sing N 290 N sing N 291 N sing N 292 N sing N 293 N sing N 294 N sing N 295 N sing N 296 N sing N 297 N sing N 298 N sing N 299 N sing N 300 N sing N 301 N sing N 302 N sing N 303 N sing N 304 N doub N 305 N sing N 306 N sing N 307 N sing N 308 N sing Y 309 N doub Y 310 N sing Y 311 N sing N 312 N sing Y 313 N doub N 314 N sing Y 315 N doub N 316 N sing Y 317 N sing N 318 N sing N 319 N sing N 320 N sing N 321 N sing N 322 N sing N 323 N sing N 324 N sing N 325 N sing N 326 N sing N 327 N doub N 328 N sing N 329 N sing N 330 N sing N 331 N sing N 332 N sing N 333 N sing N 334 N sing N 335 N sing N 336 N sing N 337 N sing N 338 N sing N 339 N sing N 340 N sing N 341 N sing N 342 N sing N 343 N sing N 344 N doub N 345 N sing N 346 N sing N 347 N sing N 348 N sing N 349 N sing N 350 N sing N 351 N sing N 352 N sing N 353 N sing N 354 N sing N 355 N sing N 356 N sing N 357 N doub N 358 N sing N 359 N sing N 360 N sing N 361 N sing N 362 N sing N 363 N sing N 364 N sing N 365 N sing N 366 N sing N 367 N sing N 368 N sing N 369 N sing N 370 N sing N 371 N sing N 372 N sing N 373 N doub N 374 N sing N 375 N sing N 376 N sing N 377 N sing Y 378 N doub Y 379 N sing Y 380 N sing N 381 N sing Y 382 N doub Y 383 N sing Y 384 N sing N 385 N sing Y 386 N sing Y 387 N doub N 388 N sing Y 389 N doub N 390 N sing Y 391 N sing N 392 N sing N 393 N sing N 394 N sing N 395 N sing N 396 N sing N 397 N sing N 398 N sing N 399 N sing N 400 N sing N 401 N doub N 402 N sing N 403 N sing N 404 N sing N 405 N sing Y 406 N doub Y 407 N sing Y 408 N sing N 409 N sing Y 410 N doub N 411 N sing Y 412 N doub N 413 N sing Y 414 N sing N 415 N sing N 416 N sing N 417 N sing N 418 N sing N 419 N sing N 420 N sing N 421 N sing N 422 N sing N 423 N sing N 424 N sing N 425 N doub N 426 N sing N 427 N sing N 428 N sing N 429 N sing N 430 N sing N 431 N sing N 432 N sing N 433 N sing N 434 N sing N 435 N sing N 436 N sing US J.Med.Chem. JMCMAR 0151 0022-2623 62 7788 7805 10.1021/acs.jmedchem.9b00582 31442049 Thienopyrimidinone Derivatives That Inhibit Bacterial tRNA (Guanine37-N1)-Methyltransferase (TrmD) by Restructuring the Active Site with a Tyrosine-Flipping Mechanism. 2019 10.2210/pdb5zhk/pdb pdb_00005zhk 100 1 PIXEL 2017-04-11 DECTRIS PILATUS 2M-F SINGLE WAVELENGTH M x-ray 1 1.00004 1.0 X06DA SLS 1.00004 SYNCHROTRON SLS BEAMLINE X06DA 26170.488 tRNA (guanine-N(1)-)-methyltransferase 2.1.1.228 1 man polymer 424.559 N-[(4-{[cyclohexyl(ethyl)amino]methyl}phenyl)methyl]-4-oxo-3,4-dihydrothieno[2,3-d]pyrimidine-5-carboxamide 1 syn non-polymer 18.015 water 122 nat water tRNA [GM37] methyltransferase no no MRIDIVTIFPACLDPLRQSLPGKAIESGLVDLNVHDLRRWTHDVHHSVDDAPYGGGPGMVMKAPVWGEALDEICSSETLL IVPTPAGVLFTQATAQRWTTESHLVFACGRYEGIDQRVVQDAARRMRVEEVSIGDYVLPGGESAAVVMVEAVLRLLAGVL GNPASHQDDSHSTGLDGLLEGPSYTRPASWRGLDVPEVLLSGDHARIAAWRREVSLQRTRERRPDLSHPDGSHHHHHH MRIDIVTIFPACLDPLRQSLPGKAIESGLVDLNVHDLRRWTHDVHHSVDDAPYGGGPGMVMKAPVWGEALDEICSSETLL IVPTPAGVLFTQATAQRWTTESHLVFACGRYEGIDQRVVQDAARRMRVEEVSIGDYVLPGGESAAVVMVEAVLRLLAGVL GNPASHQDDSHSTGLDGLLEGPSYTRPASWRGLDVPEVLLSGDHARIAAWRREVSLQRTRERRPDLSHPDGSHHHHHH A polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n H37Rv sample 1 238 trmD 83332 Mycobacterium tuberculosis H37Rv 469008 Escherichia coli BL21(DE3) BL21(DE3) Biological sequence 1 2.06 40.29 VAPOR DIFFUSION, SITTING DROP 6.5 100mM Bis-Tris at pH 6.5, 20%(w/v) PEG3350, 0.1M ammonium acetate; the crystal was soaked with 1 mM inhibitor. 293 citation citation_author citation citation_author chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model repository Initial release Data collection Database references Data collection Database references Data collection Database references Refinement description 1 0 2019-03-06 1 1 2019-09-04 1 2 2019-09-25 1 3 2023-11-22 _citation.country _citation.journal_abbrev _citation.journal_id_ASTM _citation.journal_id_CSD _citation.journal_id_ISSN _citation.pdbx_database_id_DOI _citation.pdbx_database_id_PubMed _citation.title _citation.year _citation.journal_volume _citation.page_first _citation.page_last _citation_author.name _database_2.pdbx_DOI _database_2.pdbx_database_accession Singapore Singapore SMART Innovation Centre ING137070-BIO N PDBJ CAPRI Y PDBJ 2018-03-13 REL REL 1 A O HOH 522 9.24 9D6 9D6 SUBJECT OF INVESTIGATION 9D6 N-[(4-{[cyclohexyl(ethyl)amino]methyl}phenyl)methyl]-4-oxo-3,4-dihydrothieno[2,3-d]pyrimidine-5-carboxamide HOH water 5WYQ PDB experimental model DRG 1 2 9D6 9D6 301 A HOH 115 3 HOH HOH 401 A HOH 1 3 HOH HOH 402 A HOH 8 3 HOH HOH 403 A HOH 123 3 HOH HOH 404 A HOH 117 3 HOH HOH 405 A HOH 128 3 HOH HOH 406 A HOH 82 3 HOH HOH 407 A HOH 133 3 HOH HOH 408 A HOH 126 3 HOH HOH 409 A HOH 30 3 HOH HOH 410 A HOH 121 3 HOH HOH 411 A HOH 6 3 HOH HOH 412 A HOH 59 3 HOH HOH 413 A HOH 75 3 HOH HOH 414 A HOH 107 3 HOH HOH 415 A HOH 96 3 HOH HOH 416 A HOH 124 3 HOH HOH 417 A HOH 63 3 HOH HOH 418 A HOH 144 3 HOH HOH 419 A HOH 35 3 HOH HOH 420 A HOH 60 3 HOH HOH 421 A HOH 42 3 HOH HOH 422 A HOH 21 3 HOH HOH 423 A HOH 13 3 HOH HOH 424 A HOH 125 3 HOH HOH 425 A HOH 54 3 HOH HOH 426 A HOH 97 3 HOH HOH 427 A HOH 11 3 HOH HOH 428 A HOH 34 3 HOH HOH 429 A HOH 129 3 HOH HOH 430 A HOH 130 3 HOH HOH 431 A HOH 102 3 HOH HOH 432 A HOH 55 3 HOH HOH 433 A HOH 62 3 HOH HOH 434 A HOH 98 3 HOH HOH 435 A HOH 138 3 HOH HOH 436 A HOH 148 3 HOH HOH 437 A HOH 100 3 HOH HOH 438 A HOH 92 3 HOH HOH 439 A HOH 70 3 HOH HOH 440 A HOH 143 3 HOH HOH 441 A HOH 10 3 HOH HOH 442 A HOH 51 3 HOH HOH 443 A HOH 61 3 HOH HOH 444 A HOH 131 3 HOH HOH 445 A HOH 79 3 HOH HOH 446 A HOH 52 3 HOH HOH 447 A HOH 20 3 HOH HOH 448 A HOH 77 3 HOH HOH 449 A HOH 95 3 HOH HOH 450 A HOH 135 3 HOH HOH 451 A HOH 15 3 HOH HOH 452 A HOH 151 3 HOH HOH 453 A HOH 40 3 HOH HOH 454 A HOH 49 3 HOH HOH 455 A HOH 19 3 HOH HOH 456 A HOH 141 3 HOH HOH 457 A HOH 81 3 HOH HOH 458 A HOH 3 3 HOH HOH 459 A HOH 37 3 HOH HOH 460 A HOH 27 3 HOH HOH 461 A HOH 76 3 HOH HOH 462 A HOH 73 3 HOH HOH 463 A HOH 84 3 HOH HOH 464 A HOH 33 3 HOH HOH 465 A HOH 87 3 HOH HOH 466 A HOH 26 3 HOH HOH 467 A HOH 105 3 HOH HOH 468 A HOH 57 3 HOH HOH 469 A HOH 36 3 HOH HOH 470 A HOH 146 3 HOH HOH 471 A HOH 83 3 HOH HOH 472 A HOH 58 3 HOH HOH 473 A HOH 7 3 HOH HOH 474 A HOH 47 3 HOH HOH 475 A HOH 80 3 HOH HOH 476 A HOH 139 3 HOH HOH 477 A HOH 28 3 HOH HOH 478 A HOH 14 3 HOH HOH 479 A HOH 68 3 HOH HOH 480 A HOH 48 3 HOH HOH 481 A HOH 69 3 HOH HOH 482 A HOH 93 3 HOH HOH 483 A HOH 25 3 HOH HOH 484 A HOH 112 3 HOH HOH 485 A HOH 108 3 HOH HOH 486 A HOH 66 3 HOH HOH 487 A HOH 4 3 HOH HOH 488 A HOH 45 3 HOH HOH 489 A HOH 44 3 HOH HOH 490 A HOH 113 3 HOH HOH 491 A HOH 110 3 HOH HOH 492 A HOH 53 3 HOH HOH 493 A HOH 46 3 HOH HOH 494 A HOH 132 3 HOH HOH 495 A HOH 22 3 HOH HOH 496 A HOH 86 3 HOH HOH 497 A HOH 88 3 HOH HOH 498 A HOH 94 3 HOH HOH 499 A HOH 50 3 HOH HOH 500 A HOH 67 3 HOH HOH 501 A HOH 78 3 HOH HOH 502 A HOH 23 3 HOH HOH 503 A HOH 104 3 HOH HOH 504 A HOH 64 3 HOH HOH 505 A HOH 31 3 HOH HOH 506 A HOH 89 3 HOH HOH 507 A HOH 150 3 HOH HOH 508 A HOH 38 3 HOH HOH 509 A HOH 91 3 HOH HOH 510 A HOH 71 3 HOH HOH 511 A HOH 29 3 HOH HOH 512 A HOH 147 3 HOH HOH 513 A HOH 90 3 HOH HOH 514 A HOH 109 3 HOH HOH 515 A HOH 99 3 HOH HOH 516 A HOH 74 3 HOH HOH 517 A HOH 41 3 HOH HOH 518 A HOH 145 3 HOH HOH 519 A HOH 106 3 HOH HOH 520 A HOH 111 3 HOH HOH 521 A HOH 72 3 HOH HOH 522 A MET 1 n 1 MET 1 A ARG 2 n 2 ARG 2 A ILE 3 n 3 ILE 3 A ASP 4 n 4 ASP 4 A ILE 5 n 5 ILE 5 A VAL 6 n 6 VAL 6 A THR 7 n 7 THR 7 A ILE 8 n 8 ILE 8 A PHE 9 n 9 PHE 9 A PRO 10 n 10 PRO 10 A ALA 11 n 11 ALA 11 A CYS 12 n 12 CYS 12 A LEU 13 n 13 LEU 13 A ASP 14 n 14 ASP 14 A PRO 15 n 15 PRO 15 A LEU 16 n 16 LEU 16 A ARG 17 n 17 ARG 17 A GLN 18 n 18 GLN 18 A SER 19 n 19 SER 19 A LEU 20 n 20 LEU 20 A PRO 21 n 21 PRO 21 A GLY 22 n 22 GLY 22 A LYS 23 n 23 LYS 23 A ALA 24 n 24 ALA 24 A ILE 25 n 25 ILE 25 A GLU 26 n 26 GLU 26 A SER 27 n 27 SER 27 A GLY 28 n 28 GLY 28 A LEU 29 n 29 LEU 29 A VAL 30 n 30 VAL 30 A ASP 31 n 31 ASP 31 A LEU 32 n 32 LEU 32 A ASN 33 n 33 ASN 33 A VAL 34 n 34 VAL 34 A HIS 35 n 35 HIS 35 A ASP 36 n 36 ASP 36 A LEU 37 n 37 LEU 37 A ARG 38 n 38 ARG 38 A ARG 39 n 39 ARG 39 A TRP 40 n 40 TRP 40 A THR 41 n 41 THR 41 A HIS 42 n 42 HIS 42 A ASP 43 n 43 ASP 43 A VAL 44 n 44 VAL 44 A HIS 45 n 45 HIS 45 A HIS 46 n 46 HIS 46 A SER 47 n 47 SER 47 A VAL 48 n 48 VAL 48 A ASP 49 n 49 ASP 49 A ASP 50 n 50 ASP 50 A ALA 51 n 51 ALA 51 A PRO 52 n 52 PRO 52 A TYR 53 n 53 TYR 53 A GLY 54 n 54 GLY 54 A GLY 55 n 55 GLY 55 A GLY 56 n 56 GLY 56 A PRO 57 n 57 PRO 57 A GLY 58 n 58 GLY 58 A MET 59 n 59 MET 59 A VAL 60 n 60 VAL 60 A MET 61 n 61 MET 61 A LYS 62 n 62 LYS 62 A ALA 63 n 63 ALA 63 A PRO 64 n 64 PRO 64 A VAL 65 n 65 VAL 65 A TRP 66 n 66 TRP 66 A GLY 67 n 67 GLY 67 A GLU 68 n 68 GLU 68 A ALA 69 n 69 ALA 69 A LEU 70 n 70 LEU 70 A ASP 71 n 71 ASP 71 A GLU 72 n 72 GLU 72 A ILE 73 n 73 ILE 73 A CYS 74 n 74 CYS 74 A SER 75 n 75 SER 75 A SER 76 n 76 SER 76 A GLU 77 n 77 GLU 77 A THR 78 n 78 THR 78 A LEU 79 n 79 LEU 79 A LEU 80 n 80 LEU 80 A ILE 81 n 81 ILE 81 A VAL 82 n 82 VAL 82 A PRO 83 n 83 PRO 83 A THR 84 n 84 THR 84 A PRO 85 n 85 PRO 85 A ALA 86 n 86 ALA 86 A GLY 87 n 87 GLY 87 A VAL 88 n 88 VAL 88 A LEU 89 n 89 LEU 89 A PHE 90 n 90 PHE 90 A THR 91 n 91 THR 91 A GLN 92 n 92 GLN 92 A ALA 93 n 93 ALA 93 A THR 94 n 94 THR 94 A ALA 95 n 95 ALA 95 A GLN 96 n 96 GLN 96 A ARG 97 n 97 ARG 97 A TRP 98 n 98 TRP 98 A THR 99 n 99 THR 99 A THR 100 n 100 THR 100 A GLU 101 n 101 GLU 101 A SER 102 n 102 SER 102 A HIS 103 n 103 HIS 103 A LEU 104 n 104 LEU 104 A VAL 105 n 105 VAL 105 A PHE 106 n 106 PHE 106 A ALA 107 n 107 ALA 107 A CYS 108 n 108 CYS 108 A GLY 109 n 109 GLY 109 A ARG 110 n 110 ARG 110 A TYR 111 n 111 TYR 111 A GLU 112 n 112 GLU 112 A GLY 113 n 113 GLY 113 A ILE 114 n 114 ILE 114 A ASP 115 n 115 ASP 115 A GLN 116 n 116 GLN 116 A ARG 117 n 117 ARG 117 A VAL 118 n 118 VAL 118 A VAL 119 n 119 VAL 119 A GLN 120 n 120 GLN 120 A ASP 121 n 121 ASP 121 A ALA 122 n 122 ALA 122 A ALA 123 n 123 ALA 123 A ARG 124 n 124 ARG 124 A ARG 125 n 125 ARG 125 A MET 126 n 126 MET 126 A ARG 127 n 127 ARG 127 A VAL 128 n 128 VAL 128 A GLU 129 n 129 GLU 129 A GLU 130 n 130 GLU 130 A VAL 131 n 131 VAL 131 A SER 132 n 132 SER 132 A ILE 133 n 133 ILE 133 A GLY 134 n 134 GLY 134 A ASP 135 n 135 ASP 135 A TYR 136 n 136 TYR 136 A VAL 137 n 137 VAL 137 A LEU 138 n 138 LEU 138 A PRO 139 n 139 PRO 139 A GLY 140 n 140 GLY 140 A GLY 141 n 141 GLY 141 A GLU 142 n 142 GLU 142 A SER 143 n 143 SER 143 A ALA 144 n 144 ALA 144 A ALA 145 n 145 ALA 145 A VAL 146 n 146 VAL 146 A VAL 147 n 147 VAL 147 A MET 148 n 148 MET 148 A VAL 149 n 149 VAL 149 A GLU 150 n 150 GLU 150 A ALA 151 n 151 ALA 151 A VAL 152 n 152 VAL 152 A LEU 153 n 153 LEU 153 A ARG 154 n 154 ARG 154 A LEU 155 n 155 LEU 155 A LEU 156 n 156 LEU 156 A ALA 157 n 157 ALA 157 A GLY 158 n 158 GLY 158 A n 159 159 A n 160 160 A n 161 161 A n 162 162 A n 163 163 A n 164 164 A n 165 165 A n 166 166 A n 167 167 A n 168 168 A n 169 169 A n 170 170 A n 171 171 A n 172 172 A n 173 173 A n 174 174 A n 175 175 A n 176 176 A n 177 177 A LEU 178 n 178 LEU 178 A LEU 179 n 179 LEU 179 A GLU 180 n 180 GLU 180 A GLY 181 n 181 GLY 181 A PRO 182 n 182 PRO 182 A SER 183 n 183 SER 183 A TYR 184 n 184 TYR 184 A THR 185 n 185 THR 185 A ARG 186 n 186 ARG 186 A PRO 187 n 187 PRO 187 A ALA 188 n 188 ALA 188 A SER 189 n 189 SER 189 A TRP 190 n 190 TRP 190 A ARG 191 n 191 ARG 191 A GLY 192 n 192 GLY 192 A LEU 193 n 193 LEU 193 A ASP 194 n 194 ASP 194 A VAL 195 n 195 VAL 195 A PRO 196 n 196 PRO 196 A GLU 197 n 197 GLU 197 A VAL 198 n 198 VAL 198 A LEU 199 n 199 LEU 199 A LEU 200 n 200 LEU 200 A SER 201 n 201 SER 201 A GLY 202 n 202 GLY 202 A ASP 203 n 203 ASP 203 A HIS 204 n 204 HIS 204 A ALA 205 n 205 ALA 205 A ARG 206 n 206 ARG 206 A ILE 207 n 207 ILE 207 A ALA 208 n 208 ALA 208 A ALA 209 n 209 ALA 209 A TRP 210 n 210 TRP 210 A ARG 211 n 211 ARG 211 A ARG 212 n 212 ARG 212 A GLU 213 n 213 GLU 213 A VAL 214 n 214 VAL 214 A SER 215 n 215 SER 215 A LEU 216 n 216 LEU 216 A GLN 217 n 217 GLN 217 A ARG 218 n 218 ARG 218 A THR 219 n 219 THR 219 A ARG 220 n 220 ARG 220 A GLU 221 n 221 GLU 221 A ARG 222 n 222 ARG 222 A ARG 223 n 223 ARG 223 A PRO 224 n 224 PRO 224 A ASP 225 n 225 ASP 225 A LEU 226 n 226 LEU 226 A SER 227 n 227 SER 227 A n 228 228 A n 229 229 A n 230 230 A n 231 231 A n 232 232 A n 233 233 A n 234 234 A n 235 235 A n 236 236 A n 237 237 A n 238 238 A author_and_software_defined_assembly PISA 2 dimeric gel filtration 7170 -19 18080 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 2_555 -x,y,-z crystal symmetry operation 0.0000000000 0.0000000000 0.0000000000 A O ASP 31 A O ASP 31 A N ILE 3 A N ILE 3 A N ASP 4 A N ASP 4 A O PHE 106 A O PHE 106 A O VAL 105 A O VAL 105 A N ILE 81 A N ILE 81 A N VAL 82 A N VAL 82 A O GLU 129 A O GLU 129 A O SER 132 A O SER 132 A N VAL 88 A N VAL 88 A N ASP 50 A N ASP 50 A O VAL 60 A O VAL 60 A N TRP 190 A N TRP 190 A O LEU 193 A O LEU 193 1 A HOH 438 C HOH 1 A VAL 159 A VAL 159 1 Y 1 A LEU 160 A LEU 160 1 Y 1 A GLY 161 A GLY 161 1 Y 1 A ASN 162 A ASN 162 1 Y 1 A PRO 163 A PRO 163 1 Y 1 A ALA 164 A ALA 164 1 Y 1 A SER 165 A SER 165 1 Y 1 A HIS 166 A HIS 166 1 Y 1 A GLN 167 A GLN 167 1 Y 1 A ASP 168 A ASP 168 1 Y 1 A ASP 169 A ASP 169 1 Y 1 A SER 170 A SER 170 1 Y 1 A HIS 171 A HIS 171 1 Y 1 A SER 172 A SER 172 1 Y 1 A THR 173 A THR 173 1 Y 1 A GLY 174 A GLY 174 1 Y 1 A LEU 175 A LEU 175 1 Y 1 A ASP 176 A ASP 176 1 Y 1 A GLY 177 A GLY 177 1 Y 1 A HIS 228 A HIS 228 1 Y 1 A PRO 229 A PRO 229 1 Y 1 A ASP 230 A ASP 230 1 Y 1 A GLY 231 A GLY 231 1 Y 1 A SER 232 A SER 232 1 Y 1 A HIS 233 A HIS 233 1 Y 1 A HIS 234 A HIS 234 1 Y 1 A HIS 235 A HIS 235 1 Y 1 A HIS 236 A HIS 236 1 Y 1 A HIS 237 A HIS 237 1 Y 1 A HIS 238 A HIS 238 1 Y 1 A SER 19 53.01 -135.46 1 A TYR 111 59.47 -136.01 28.92 4.28000 0.00000 -2.54940 0.07690 0.00000 -4.35690 0.929 0.897 0.227 0.173 0.176 2.30 58.08 462 8972 5.150 93.5 0.398 RANDOM 1 THROUGHOUT 0.000 MOLECULAR REPLACEMENT 0.449 0.239 0.237 5WYQ 0.29 2.30 58.08 122 1763 30 0 1611 0.010 1698 HARMONIC 2.00 1.07 2314 HARMONIC 2.00 582 SINUSOIDAL 2.00 35 HARMONIC 2.00 252 HARMONIC 5.00 1698 HARMONIC 20.00 2.91 18.15 211 SEMIHARMONIC 5.00 2044 SEMIHARMONIC 4.00 0.255 0.000 0.171 0.174 2.57 106 2391 2497 5 4.25 92.65 2.30 58.08 5ZHK 8972 0.115 1 6.6 2.6 94.2 0.438 2.3 2.42 3432 1 refinement BUSTER 2.10.2 data reduction MOSFLM data scaling SCALA phasing PHASER N Crystal structure of TrmD from Mycobacterium tuberculosis in complex with active-site inhibitor 1 N N 2 N N 3 N N A PHE 9 A PHE 9 HELX_P A ARG 17 A ARG 17 5 AA1 9 A GLN 18 A GLN 18 HELX_P A SER 27 A SER 27 1 AA2 10 A ARG 38 A ARG 38 HELX_P A THR 41 A THR 41 5 AA3 4 A LYS 62 A LYS 62 HELX_P A CYS 74 A CYS 74 1 AA4 13 A THR 91 A THR 91 HELX_P A THR 99 A THR 99 1 AA5 9 A GLN 116 A GLN 116 HELX_P A ALA 123 A ALA 123 1 AA6 8 A GLY 141 A GLY 141 HELX_P A ALA 157 A ALA 157 1 AA7 17 A PRO 196 A PRO 196 HELX_P A SER 201 A SER 201 5 AA8 6 A ASP 203 A ASP 203 HELX_P A ARG 223 A ARG 223 1 AA9 21 A PRO 224 A PRO 224 HELX_P A SER 227 A SER 227 5 AB1 4 TRANSFERASE tRNA methyltransferase, TRANSFERASE A ARG 186 A ARG 186 1 A PRO 187 A PRO 187 3.45 TRMD_MYCTU UNP 1 1 P9WFY7 MRIDIVTIFPACLDPLRQSLPGKAIESGLVDLNVHDLRRWTHDVHHSVDDAPYGGGPGMVMKAPVWGEALDEICSSETLL IVPTPAGVLFTQATAQRWTTESHLVFACGRYEGIDQRVVQDAARRMRVEEVSIGDYVLPGGESAAVVMVEAVLRLLAGVL GNPASHQDDSHSTGLDGLLEGPSYTRPASWRGLDVPEVLLSGDHARIAAWRREVSLQRTRERRPDLSHPD 1 230 5ZHK 1 230 P9WFY7 A 1 1 230 1 expression tag GLY 231 5ZHK A P9WFY7 UNP 231 1 expression tag SER 232 5ZHK A P9WFY7 UNP 232 1 expression tag HIS 233 5ZHK A P9WFY7 UNP 233 1 expression tag HIS 234 5ZHK A P9WFY7 UNP 234 1 expression tag HIS 235 5ZHK A P9WFY7 UNP 235 1 expression tag HIS 236 5ZHK A P9WFY7 UNP 236 1 expression tag HIS 237 5ZHK A P9WFY7 UNP 237 1 expression tag HIS 238 5ZHK A P9WFY7 UNP 238 6 2 2 parallel parallel parallel parallel parallel anti-parallel anti-parallel A ASP 31 A ASP 31 A ASP 36 A ASP 36 A ARG 2 A ARG 2 A THR 7 A THR 7 A HIS 103 A HIS 103 A ALA 107 A ALA 107 A LEU 79 A LEU 79 A PRO 83 A PRO 83 A ARG 127 A ARG 127 A SER 132 A SER 132 A VAL 88 A VAL 88 A LEU 89 A LEU 89 A ASP 49 A ASP 49 A ASP 50 A ASP 50 A VAL 60 A VAL 60 A MET 61 A MET 61 A SER 189 A SER 189 A TRP 190 A TRP 190 A LEU 193 A LEU 193 A ASP 194 A ASP 194 binding site for residue 9D6 A 301 A 9D6 301 Software 16 A PRO 83 A PRO 83 16 1_555 A THR 84 A THR 84 16 1_555 A PRO 85 A PRO 85 16 1_555 A GLU 112 A GLU 112 16 1_555 A SER 132 A SER 132 16 1_555 A ILE 133 A ILE 133 16 1_555 A GLY 134 A GLY 134 16 1_555 A TYR 136 A TYR 136 16 1_555 A LEU 138 A LEU 138 16 1_555 A GLY 140 A GLY 140 16 1_555 A GLY 141 A GLY 141 16 1_555 A ALA 144 A ALA 144 16 1_555 A ARG 154 A ARG 154 16 2_555 A GLU 180 A GLU 180 16 2_555 A HOH 401 C HOH 16 1_555 A HOH 445 C HOH 16 1_555 5 C 1 2 1