0.010247 0.005916 0.000000 0.000000 0.011832 0.000000 0.000000 0.000000 0.012306 0.00000 0.00000 0.00000 Bellamacina, C.R. Shafer, C.M. Lindvall, M. Gesner, T.G. Yabannavar, A. Weiping, J. Song, L. Walter, A. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 6 90.00 90.00 120.00 97.590 97.590 81.258 C17 H14 N2 O2 278.305 4-(4-hydroxy-3-methylphenyl)-6-phenylpyrimidin-2(5H)-one 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 H8 N O6 P 185.072 n PHOSPHOSERINE PHOSPHONOSERINE 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 O N 2 N C N 3 N N N 4 N C Y 5 N C Y 6 N C Y 7 N C N 8 N C Y 9 N C N 10 N O Y 11 N C Y 12 N C N 13 N C N 14 N C N 15 N N Y 16 N C Y 17 N C Y 18 N C Y 19 N C Y 20 N C Y 21 N C N 22 N H N 23 N H N 24 N H N 25 N H N 26 N H N 27 N H N 28 N H N 29 N H N 30 N H N 31 N H N 32 N H N 33 N H N 34 N H N 35 N H N 36 N N N 37 S C N 38 N C N 39 N O N 40 N C N 41 N O 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 N N 50 S C N 51 N C N 52 N O N 53 N C N 54 N C N 55 N C N 56 N N N 57 N C N 58 N N N 59 N N N 60 N O N 61 N H N 62 N H N 63 N H N 64 N H 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 H N 73 N H N 74 N H N 75 N H N 76 N N N 77 S C N 78 N C N 79 N O N 80 N C N 81 N C N 82 N O N 83 N N N 84 N O 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 N N 94 S C N 95 N C N 96 N O N 97 N C N 98 N C N 99 N O N 100 N O N 101 N O N 102 N H N 103 N H N 104 N H N 105 N H N 106 N H N 107 N H N 108 N H N 109 N N N 110 R C N 111 N C N 112 N O N 113 N C N 114 N S N 115 N O N 116 N H N 117 N H N 118 N H N 119 N H N 120 N H N 121 N H N 122 N H N 123 N N N 124 S C N 125 N C N 126 N O N 127 N C N 128 N C N 129 N C N 130 N O N 131 N N N 132 N O N 133 N H N 134 N H N 135 N H N 136 N H N 137 N H N 138 N H N 139 N H N 140 N H N 141 N H N 142 N H N 143 N N N 144 S C N 145 N C N 146 N O N 147 N C N 148 N C N 149 N C N 150 N O N 151 N O N 152 N O N 153 N H N 154 N H N 155 N H 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 N N 163 N C N 164 N C N 165 N O N 166 N O N 167 N H N 168 N H N 169 N H N 170 N H N 171 N H N 172 N N N 173 S C N 174 N C N 175 N O N 176 N C Y 177 N C Y 178 N N Y 179 N C Y 180 N C Y 181 N N N 182 N O N 183 N H N 184 N H N 185 N H N 186 N H N 187 N H N 188 N H N 189 N H N 190 N H N 191 N H N 192 N H N 193 N O N 194 N H N 195 N H N 196 N N N 197 S C N 198 N C N 199 N O N 200 S C N 201 N C N 202 N C N 203 N C N 204 N O N 205 N H 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 H N 217 N H N 218 N N N 219 S C N 220 N C N 221 N O N 222 N C N 223 N C N 224 N C N 225 N C N 226 N O N 227 N H 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 N N 241 S C N 242 N C N 243 N O N 244 N C N 245 N C N 246 N C N 247 N C N 248 N N 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 H N 264 N H N 265 N N N 266 S C N 267 N C N 268 N O N 269 N C N 270 N C N 271 N S N 272 N C N 273 N O 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 N N 286 S C N 287 N C N 288 N O N 289 N C Y 290 N C Y 291 N C Y 292 N C Y 293 N C Y 294 N C Y 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 N 313 N C N 314 N C N 315 N O N 316 N H N 317 N H N 318 N H N 319 N H N 320 N H N 321 N H N 322 N H N 323 N H N 324 N H N 325 N N N 326 S C N 327 N C N 328 N O N 329 N C N 330 N O N 331 N O N 332 N P N 333 N O N 334 N O N 335 N O N 336 N H N 337 N H N 338 N H N 339 N H N 340 N H N 341 N H N 342 N H N 343 N H N 344 N N N 345 S C N 346 N C N 347 N O N 348 N C N 349 N O N 350 N O N 351 N H N 352 N H N 353 N H N 354 N H N 355 N H N 356 N H N 357 N H N 358 N N N 359 S C N 360 N C N 361 N O N 362 R C N 363 N O N 364 N C N 365 N O N 366 N H N 367 N H N 368 N H N 369 N H N 370 N H N 371 N H N 372 N H N 373 N H N 374 N H N 375 N N N 376 S C N 377 N C N 378 N O N 379 N C Y 380 N C Y 381 N C Y 382 N C Y 383 N N Y 384 N C Y 385 N C Y 386 N C Y 387 N C Y 388 N C N 389 N O N 390 N H N 391 N H N 392 N H N 393 N H 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 N N 403 S C N 404 N C N 405 N O N 406 N C Y 407 N C Y 408 N C Y 409 N C Y 410 N C Y 411 N C Y 412 N C N 413 N O N 414 N O N 415 N H N 416 N H N 417 N H N 418 N H 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 N N 427 S C N 428 N C N 429 N O N 430 N C N 431 N C N 432 N C N 433 N O N 434 N H N 435 N H N 436 N H N 437 N H 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 1 N doub N 2 N sing N 3 N sing N 4 N doub N 5 N sing N 6 N sing Y 7 N doub Y 8 N sing Y 9 N doub N 10 N sing Y 11 N sing N 12 N sing N 13 N sing N 14 N sing N 15 N sing Y 16 N doub N 17 N sing N 18 N sing Y 19 N sing N 20 N sing N 21 N sing N 22 N sing N 23 N sing N 24 N sing N 25 N doub N 26 N sing Y 27 N doub Y 28 N sing Y 29 N doub N 30 N sing Y 31 N sing N 32 N sing Y 33 N doub N 34 N sing Y 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 doub 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 doub 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 sing N 69 N sing N 70 N doub 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 sing N 81 N sing N 82 N doub N 83 N sing N 84 N sing N 85 N sing N 86 N sing N 87 N doub 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 sing N 95 N sing N 96 N sing N 97 N sing N 98 N doub N 99 N sing N 100 N sing N 101 N sing N 102 N sing N 103 N doub N 104 N sing N 105 N sing N 106 N sing N 107 N sing N 108 N sing N 109 N sing N 110 N sing N 111 N sing N 112 N sing N 113 N doub 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 sing N 123 N sing N 124 N sing N 125 N sing N 126 N doub N 127 N sing 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 doub N 135 N sing N 136 N sing N 137 N sing 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 doub N 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N sing N 151 N sing N 152 N sing N 153 N doub N 154 N sing N 155 N sing N 156 N sing N 157 N sing N 158 N sing N 159 N sing N 160 N sing N 161 N sing N 162 N sing N 163 N doub N 164 N sing N 165 N sing N 166 N sing N 167 N sing N 168 N sing N 169 N sing N 170 N sing N 171 N sing N 172 N doub N 173 N sing N 174 N sing N 175 N sing N 176 N sing Y 177 N sing Y 178 N doub Y 179 N doub N 180 N sing Y 181 N sing N 182 N sing Y 183 N sing N 184 N sing N 185 N sing N 186 N sing N 187 N sing 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 doub N 196 N sing N 197 N sing N 198 N sing N 199 N sing N 200 N sing N 201 N sing N 202 N sing N 203 N sing N 204 N sing N 205 N sing N 206 N sing N 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 doub N 217 N sing N 218 N sing N 219 N sing 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 doub N 238 N sing N 239 N sing N 240 N sing 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 doub N 281 N sing N 282 N sing N 283 N sing N 284 N sing Y 285 N doub Y 286 N sing Y 287 N sing N 288 N sing Y 289 N doub N 290 N sing Y 291 N doub N 292 N sing Y 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 doub N 304 N sing N 305 N sing N 306 N sing N 307 N sing N 308 N sing N 309 N sing N 310 N sing N 311 N sing N 312 N sing N 313 N sing N 314 N sing N 315 N sing N 316 N sing N 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 doub 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 doub N 339 N sing N 340 N sing N 341 N sing N 342 N sing N 343 N sing N 344 N sing 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 doub N 352 N sing N 353 N sing N 354 N sing N 355 N sing N 356 N sing N 357 N sing 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 doub N 368 N sing N 369 N sing N 370 N sing N 371 N sing Y 372 N doub Y 373 N sing Y 374 N sing N 375 N sing Y 376 N doub Y 377 N sing Y 378 N sing N 379 N sing Y 380 N sing Y 381 N doub N 382 N sing Y 383 N doub N 384 N sing Y 385 N sing N 386 N sing N 387 N sing N 388 N sing N 389 N sing N 390 N sing N 391 N sing N 392 N sing N 393 N sing N 394 N sing N 395 N doub N 396 N sing N 397 N sing N 398 N sing N 399 N sing Y 400 N doub Y 401 N sing Y 402 N sing N 403 N sing Y 404 N doub N 405 N sing Y 406 N doub N 407 N sing Y 408 N sing N 409 N sing N 410 N sing N 411 N sing N 412 N sing N 413 N sing N 414 N sing N 415 N sing N 416 N sing N 417 N sing N 418 N sing N 419 N doub N 420 N sing N 421 N sing N 422 N sing N 423 N sing N 424 N sing N 425 N sing N 426 N sing N 427 N sing N 428 N sing N 429 N sing N 430 N sing UK Bioorg.Med.Chem.Lett. BMCLE8 1127 0960-894X 18 4482 4485 10.1016/j.bmcl.2008.07.061 18672368 4-(1H-indazol-5-yl)-6-phenylpyrimidin-2(1H)-one analogs as potent CDC7 inhibitors. 2008 10.2210/pdb3dcv/pdb pdb_00003dcv 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 100 1 CCD 2006-03-20 MARMOSAIC 325 mm CCD double crystal SINGLE WAVELENGTH M x-ray 1 0.97900 1.0 BL9-2 SSRL 0.97900 SYNCHROTRON SSRL BEAMLINE BL9-2 37596.703 Proto-oncogene serine/threonine-protein kinase Pim-1 2.7.11.1 Kinase domain: Residues 93-404 1 man polymer 278.305 4-(4-hydroxy-3-methylphenyl)-6-phenylpyrimidin-2(5H)-one 1 syn non-polymer 18.015 water 98 nat water no yes MAHHHHHHLEVLFQGPLLSKINSLAHLRAAPCNDLHATKLAPGKEKEPLESQYQVGPLLGSGGFGSVYSGIRVSDNLPVA IKHVEKDRISDWGELPNGTRVPMEVVLLKKVSSGFSGVIRLLDWFERPDSFVLILERPEPVQDLFDFITERGALQEELAR SFFWQVLEAVRHCHNCGVLHRDIKDENILIDLNRGELKLIDFGSGALLKDTVYTDFDGTRVYSPPEWIRYHRYHGRSAAV WSLGILLYDMVCGDIPFEHDEEIIRGQVFFRQRVS(SEP)ECQHLIRWCLALRPSDRPTFEEIQNHPWMQDVLLPQETAE IHLHSLSPGPSK MAHHHHHHLEVLFQGPLLSKINSLAHLRAAPCNDLHATKLAPGKEKEPLESQYQVGPLLGSGGFGSVYSGIRVSDNLPVA IKHVEKDRISDWGELPNGTRVPMEVVLLKKVSSGFSGVIRLLDWFERPDSFVLILERPEPVQDLFDFITERGALQEELAR SFFWQVLEAVRHCHNCGVLHRDIKDENILIDLNRGELKLIDFGSGALLKDTVYTDFDGTRVYSPPEWIRYHRYHGRSAAV WSLGILLYDMVCGDIPFEHDEEIIRGQVFFRQRVSSECQHLIRWCLALRPSDRPTFEEIQNHPWMQDVLLPQETAEIHLH SLSPGPSK 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 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 sample PIM1 9606 Homo sapiens Escherichia coli BL21 Plasmid pDEST14 1 2.97 58.60 VAPOR DIFFUSION, HANGING DROP 5.5 600mM (NH4)2HPO4, 250mM NaCl, 100mM Na Citrate pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K 298 chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model struct_conn struct_ref_seq_dif struct_site repository Initial release Version format compliance Data collection Database references Derived calculations Refinement description 1 0 2008-08-19 1 1 2011-07-13 1 2 2024-04-03 _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_conn.pdbx_leaving_atom_flag _struct_ref_seq_dif.details _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id RCSB Y RCSB 2008-06-04 REL REL 55E 4-(4-hydroxy-3-methylphenyl)-6-phenylpyrimidin-2(5H)-one HOH water Pim1-apo (in-house structure) other 55E 500 2 55E 55E 500 A HOH 1002 3 HOH HOH 1002 A HOH 1003 3 HOH HOH 1003 A HOH 1006 3 HOH HOH 1006 A HOH 1007 3 HOH HOH 1007 A HOH 1008 3 HOH HOH 1008 A HOH 1009 3 HOH HOH 1009 A HOH 1010 3 HOH HOH 1010 A HOH 1011 3 HOH HOH 1011 A HOH 1012 3 HOH HOH 1012 A HOH 1013 3 HOH HOH 1013 A HOH 1014 3 HOH HOH 1014 A HOH 1015 3 HOH HOH 1015 A HOH 1016 3 HOH HOH 1016 A HOH 1017 3 HOH HOH 1017 A HOH 1018 3 HOH HOH 1018 A HOH 1019 3 HOH HOH 1019 A HOH 1020 3 HOH HOH 1020 A HOH 1021 3 HOH HOH 1021 A HOH 1022 3 HOH HOH 1022 A HOH 1023 3 HOH HOH 1023 A HOH 1024 3 HOH HOH 1024 A HOH 1025 3 HOH HOH 1025 A HOH 1026 3 HOH HOH 1026 A HOH 1027 3 HOH HOH 1027 A HOH 1028 3 HOH HOH 1028 A HOH 1029 3 HOH HOH 1029 A HOH 1030 3 HOH HOH 1030 A HOH 1031 3 HOH HOH 1031 A HOH 1032 3 HOH HOH 1032 A HOH 1033 3 HOH HOH 1033 A HOH 1034 3 HOH HOH 1034 A HOH 1035 3 HOH HOH 1035 A HOH 1036 3 HOH HOH 1036 A HOH 1037 3 HOH HOH 1037 A HOH 1038 3 HOH HOH 1038 A HOH 1039 3 HOH HOH 1039 A HOH 1040 3 HOH HOH 1040 A HOH 1041 3 HOH HOH 1041 A HOH 1042 3 HOH HOH 1042 A HOH 1043 3 HOH HOH 1043 A HOH 1044 3 HOH HOH 1044 A HOH 1045 3 HOH HOH 1045 A HOH 1046 3 HOH HOH 1046 A HOH 1047 3 HOH HOH 1047 A HOH 1048 3 HOH HOH 1048 A HOH 1049 3 HOH HOH 1049 A HOH 1050 3 HOH HOH 1050 A HOH 1051 3 HOH HOH 1051 A HOH 1052 3 HOH HOH 1052 A HOH 1053 3 HOH HOH 1053 A HOH 1054 3 HOH HOH 1054 A HOH 1055 3 HOH HOH 1055 A HOH 1056 3 HOH HOH 1056 A HOH 1057 3 HOH HOH 1057 A HOH 1058 3 HOH HOH 1058 A HOH 1059 3 HOH HOH 1059 A HOH 1060 3 HOH HOH 1060 A HOH 1061 3 HOH HOH 1061 A HOH 1062 3 HOH HOH 1062 A HOH 1063 3 HOH HOH 1063 A HOH 1064 3 HOH HOH 1064 A HOH 1065 3 HOH HOH 1065 A HOH 1066 3 HOH HOH 1066 A HOH 1067 3 HOH HOH 1067 A HOH 1068 3 HOH HOH 1068 A HOH 1069 3 HOH HOH 1069 A HOH 1070 3 HOH HOH 1070 A HOH 1071 3 HOH HOH 1071 A HOH 1072 3 HOH HOH 1072 A HOH 1073 3 HOH HOH 1073 A HOH 1074 3 HOH HOH 1074 A HOH 1075 3 HOH HOH 1075 A HOH 1076 3 HOH HOH 1076 A HOH 1077 3 HOH HOH 1077 A HOH 1078 3 HOH HOH 1078 A HOH 1079 3 HOH HOH 1079 A HOH 1080 3 HOH HOH 1080 A HOH 1081 3 HOH HOH 1081 A HOH 1082 3 HOH HOH 1082 A HOH 1083 3 HOH HOH 1083 A HOH 1084 3 HOH HOH 1084 A HOH 1085 3 HOH HOH 1085 A HOH 1086 3 HOH HOH 1086 A HOH 1087 3 HOH HOH 1087 A HOH 1088 3 HOH HOH 1088 A HOH 1089 3 HOH HOH 1089 A HOH 1090 3 HOH HOH 1090 A HOH 1091 3 HOH HOH 1091 A HOH 1092 3 HOH HOH 1092 A HOH 1093 3 HOH HOH 1093 A HOH 1094 3 HOH HOH 1094 A HOH 1095 3 HOH HOH 1095 A HOH 1096 3 HOH HOH 1096 A HOH 1097 3 HOH HOH 1097 A HOH 1098 3 HOH HOH 1098 A HOH 1099 3 HOH HOH 1099 A HOH 1100 3 HOH HOH 1100 A HOH 1101 3 HOH HOH 1101 A n 1 -14 A n 2 -13 A n 3 -12 A n 4 -11 A n 5 -10 A n 6 -9 A n 7 -8 A n 8 -7 A n 9 -6 A n 10 -5 A n 11 -4 A n 12 -3 A n 13 -2 A n 14 -1 A n 15 0 A n 16 1 A n 17 2 A n 18 3 A n 19 4 A n 20 5 A n 21 6 A n 22 7 A n 23 8 A n 24 9 A n 25 10 A n 26 11 A n 27 12 A n 28 13 A n 29 14 A n 30 15 A n 31 16 A n 32 17 A n 33 18 A n 34 19 A n 35 20 A n 36 21 A n 37 22 A n 38 23 A n 39 24 A n 40 25 A n 41 26 A n 42 27 A n 43 28 A n 44 29 A n 45 30 A n 46 31 A GLU 32 n 47 GLU 32 A PRO 33 n 48 PRO 33 A LEU 34 n 49 LEU 34 A GLU 35 n 50 GLU 35 A SER 36 n 51 SER 36 A GLN 37 n 52 GLN 37 A TYR 38 n 53 TYR 38 A GLN 39 n 54 GLN 39 A VAL 40 n 55 VAL 40 A GLY 41 n 56 GLY 41 A PRO 42 n 57 PRO 42 A LEU 43 n 58 LEU 43 A LEU 44 n 59 LEU 44 A GLY 45 n 60 GLY 45 A SER 46 n 61 SER 46 A GLY 47 n 62 GLY 47 A GLY 48 n 63 GLY 48 A PHE 49 n 64 PHE 49 A GLY 50 n 65 GLY 50 A SER 51 n 66 SER 51 A VAL 52 n 67 VAL 52 A TYR 53 n 68 TYR 53 A SER 54 n 69 SER 54 A GLY 55 n 70 GLY 55 A ILE 56 n 71 ILE 56 A ARG 57 n 72 ARG 57 A VAL 58 n 73 VAL 58 A SER 59 n 74 SER 59 A ASP 60 n 75 ASP 60 A ASN 61 n 76 ASN 61 A LEU 62 n 77 LEU 62 A PRO 63 n 78 PRO 63 A VAL 64 n 79 VAL 64 A ALA 65 n 80 ALA 65 A ILE 66 n 81 ILE 66 A LYS 67 n 82 LYS 67 A HIS 68 n 83 HIS 68 A VAL 69 n 84 VAL 69 A GLU 70 n 85 GLU 70 A LYS 71 n 86 LYS 71 A ASP 72 n 87 ASP 72 A ARG 73 n 88 ARG 73 A ILE 74 n 89 ILE 74 A SER 75 n 90 SER 75 A ASP 76 n 91 ASP 76 A TRP 77 n 92 TRP 77 A GLY 78 n 93 GLY 78 A GLU 79 n 94 GLU 79 A LEU 80 n 95 LEU 80 A PRO 81 n 96 PRO 81 A ASN 82 n 97 ASN 82 A GLY 83 n 98 GLY 83 A THR 84 n 99 THR 84 A ARG 85 n 100 ARG 85 A VAL 86 n 101 VAL 86 A PRO 87 n 102 PRO 87 A MET 88 n 103 MET 88 A GLU 89 n 104 GLU 89 A VAL 90 n 105 VAL 90 A VAL 91 n 106 VAL 91 A LEU 92 n 107 LEU 92 A LEU 93 n 108 LEU 93 A LYS 94 n 109 LYS 94 A LYS 95 n 110 LYS 95 A VAL 96 n 111 VAL 96 A SER 97 n 112 SER 97 A SER 98 n 113 SER 98 A GLY 99 n 114 GLY 99 A PHE 100 n 115 PHE 100 A SER 101 n 116 SER 101 A GLY 102 n 117 GLY 102 A VAL 103 n 118 VAL 103 A ILE 104 n 119 ILE 104 A ARG 105 n 120 ARG 105 A LEU 106 n 121 LEU 106 A LEU 107 n 122 LEU 107 A ASP 108 n 123 ASP 108 A TRP 109 n 124 TRP 109 A PHE 110 n 125 PHE 110 A GLU 111 n 126 GLU 111 A ARG 112 n 127 ARG 112 A PRO 113 n 128 PRO 113 A ASP 114 n 129 ASP 114 A SER 115 n 130 SER 115 A PHE 116 n 131 PHE 116 A VAL 117 n 132 VAL 117 A LEU 118 n 133 LEU 118 A ILE 119 n 134 ILE 119 A LEU 120 n 135 LEU 120 A GLU 121 n 136 GLU 121 A ARG 122 n 137 ARG 122 A PRO 123 n 138 PRO 123 A GLU 124 n 139 GLU 124 A PRO 125 n 140 PRO 125 A VAL 126 n 141 VAL 126 A GLN 127 n 142 GLN 127 A ASP 128 n 143 ASP 128 A LEU 129 n 144 LEU 129 A PHE 130 n 145 PHE 130 A ASP 131 n 146 ASP 131 A PHE 132 n 147 PHE 132 A ILE 133 n 148 ILE 133 A THR 134 n 149 THR 134 A GLU 135 n 150 GLU 135 A ARG 136 n 151 ARG 136 A GLY 137 n 152 GLY 137 A ALA 138 n 153 ALA 138 A LEU 139 n 154 LEU 139 A GLN 140 n 155 GLN 140 A GLU 141 n 156 GLU 141 A GLU 142 n 157 GLU 142 A LEU 143 n 158 LEU 143 A ALA 144 n 159 ALA 144 A ARG 145 n 160 ARG 145 A SER 146 n 161 SER 146 A PHE 147 n 162 PHE 147 A PHE 148 n 163 PHE 148 A TRP 149 n 164 TRP 149 A GLN 150 n 165 GLN 150 A VAL 151 n 166 VAL 151 A LEU 152 n 167 LEU 152 A GLU 153 n 168 GLU 153 A ALA 154 n 169 ALA 154 A VAL 155 n 170 VAL 155 A ARG 156 n 171 ARG 156 A HIS 157 n 172 HIS 157 A CYS 158 n 173 CYS 158 A HIS 159 n 174 HIS 159 A ASN 160 n 175 ASN 160 A CYS 161 n 176 CYS 161 A GLY 162 n 177 GLY 162 A VAL 163 n 178 VAL 163 A LEU 164 n 179 LEU 164 A HIS 165 n 180 HIS 165 A ARG 166 n 181 ARG 166 A ASP 167 n 182 ASP 167 A ILE 168 n 183 ILE 168 A LYS 169 n 184 LYS 169 A ASP 170 n 185 ASP 170 A GLU 171 n 186 GLU 171 A ASN 172 n 187 ASN 172 A ILE 173 n 188 ILE 173 A LEU 174 n 189 LEU 174 A ILE 175 n 190 ILE 175 A ASP 176 n 191 ASP 176 A LEU 177 n 192 LEU 177 A ASN 178 n 193 ASN 178 A ARG 179 n 194 ARG 179 A GLY 180 n 195 GLY 180 A GLU 181 n 196 GLU 181 A LEU 182 n 197 LEU 182 A LYS 183 n 198 LYS 183 A LEU 184 n 199 LEU 184 A ILE 185 n 200 ILE 185 A ASP 186 n 201 ASP 186 A PHE 187 n 202 PHE 187 A GLY 188 n 203 GLY 188 A SER 189 n 204 SER 189 A GLY 190 n 205 GLY 190 A ALA 191 n 206 ALA 191 A LEU 192 n 207 LEU 192 A LEU 193 n 208 LEU 193 A LYS 194 n 209 LYS 194 A ASP 195 n 210 ASP 195 A THR 196 n 211 THR 196 A VAL 197 n 212 VAL 197 A TYR 198 n 213 TYR 198 A THR 199 n 214 THR 199 A ASP 200 n 215 ASP 200 A PHE 201 n 216 PHE 201 A ASP 202 n 217 ASP 202 A GLY 203 n 218 GLY 203 A THR 204 n 219 THR 204 A ARG 205 n 220 ARG 205 A VAL 206 n 221 VAL 206 A TYR 207 n 222 TYR 207 A SER 208 n 223 SER 208 A PRO 209 n 224 PRO 209 A PRO 210 n 225 PRO 210 A GLU 211 n 226 GLU 211 A TRP 212 n 227 TRP 212 A ILE 213 n 228 ILE 213 A ARG 214 n 229 ARG 214 A TYR 215 n 230 TYR 215 A HIS 216 n 231 HIS 216 A ARG 217 n 232 ARG 217 A TYR 218 n 233 TYR 218 A HIS 219 n 234 HIS 219 A GLY 220 n 235 GLY 220 A ARG 221 n 236 ARG 221 A SER 222 n 237 SER 222 A ALA 223 n 238 ALA 223 A ALA 224 n 239 ALA 224 A VAL 225 n 240 VAL 225 A TRP 226 n 241 TRP 226 A SER 227 n 242 SER 227 A LEU 228 n 243 LEU 228 A GLY 229 n 244 GLY 229 A ILE 230 n 245 ILE 230 A LEU 231 n 246 LEU 231 A LEU 232 n 247 LEU 232 A TYR 233 n 248 TYR 233 A ASP 234 n 249 ASP 234 A MET 235 n 250 MET 235 A VAL 236 n 251 VAL 236 A CYS 237 n 252 CYS 237 A GLY 238 n 253 GLY 238 A ASP 239 n 254 ASP 239 A ILE 240 n 255 ILE 240 A PRO 241 n 256 PRO 241 A PHE 242 n 257 PHE 242 A GLU 243 n 258 GLU 243 A HIS 244 n 259 HIS 244 A ASP 245 n 260 ASP 245 A GLU 246 n 261 GLU 246 A GLU 247 n 262 GLU 247 A ILE 248 n 263 ILE 248 A ILE 249 n 264 ILE 249 A ARG 250 n 265 ARG 250 A GLY 251 n 266 GLY 251 A GLN 252 n 267 GLN 252 A VAL 253 n 268 VAL 253 A PHE 254 n 269 PHE 254 A PHE 255 n 270 PHE 255 A ARG 256 n 271 ARG 256 A GLN 257 n 272 GLN 257 A ARG 258 n 273 ARG 258 A VAL 259 n 274 VAL 259 A SER 260 n 275 SER 260 A SEP 261 n 276 SEP 261 A GLU 262 n 277 GLU 262 A CYS 263 n 278 CYS 263 A GLN 264 n 279 GLN 264 A HIS 265 n 280 HIS 265 A LEU 266 n 281 LEU 266 A ILE 267 n 282 ILE 267 A ARG 268 n 283 ARG 268 A TRP 269 n 284 TRP 269 A CYS 270 n 285 CYS 270 A LEU 271 n 286 LEU 271 A ALA 272 n 287 ALA 272 A LEU 273 n 288 LEU 273 A ARG 274 n 289 ARG 274 A PRO 275 n 290 PRO 275 A SER 276 n 291 SER 276 A ASP 277 n 292 ASP 277 A ARG 278 n 293 ARG 278 A PRO 279 n 294 PRO 279 A THR 280 n 295 THR 280 A PHE 281 n 296 PHE 281 A GLU 282 n 297 GLU 282 A GLU 283 n 298 GLU 283 A ILE 284 n 299 ILE 284 A GLN 285 n 300 GLN 285 A ASN 286 n 301 ASN 286 A HIS 287 n 302 HIS 287 A PRO 288 n 303 PRO 288 A TRP 289 n 304 TRP 289 A MET 290 n 305 MET 290 A GLN 291 n 306 GLN 291 A ASP 292 n 307 ASP 292 A VAL 293 n 308 VAL 293 A LEU 294 n 309 LEU 294 A LEU 295 n 310 LEU 295 A PRO 296 n 311 PRO 296 A GLN 297 n 312 GLN 297 A GLU 298 n 313 GLU 298 A THR 299 n 314 THR 299 A ALA 300 n 315 ALA 300 A GLU 301 n 316 GLU 301 A ILE 302 n 317 ILE 302 A HIS 303 n 318 HIS 303 A LEU 304 n 319 LEU 304 A HIS 305 n 320 HIS 305 A n 321 306 A n 322 307 A n 323 308 A n 324 309 A n 325 310 A n 326 311 A n 327 312 A n 328 313 A author_and_software_defined_assembly PISA 1 monomeric A SEP 261 PHOSPHOSERINE A SEP 276 SER 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 A N LEU 44 A N LEU 59 A O VAL 52 A O VAL 67 A N ARG 57 A N ARG 72 A O LEU 62 A O LEU 77 A N VAL 69 A N VAL 84 A O PHE 116 A O PHE 131 A O ILE 119 A O ILE 134 A N LEU 107 A N LEU 122 A N GLY 78 A N GLY 93 A O VAL 86 A O VAL 101 A N GLN 127 A N GLN 142 A O ILE 175 A O ILE 190 A N ASP 176 A N ASP 191 A O GLU 181 A O GLU 196 A N LEU 164 A N LEU 179 A O ALA 191 A O ALA 206 1 A MET -14 A MET 1 1 Y 1 A ALA -13 A ALA 2 1 Y 1 A HIS -12 A HIS 3 1 Y 1 A HIS -11 A HIS 4 1 Y 1 A HIS -10 A HIS 5 1 Y 1 A HIS -9 A HIS 6 1 Y 1 A HIS -8 A HIS 7 1 Y 1 A HIS -7 A HIS 8 1 Y 1 A LEU -6 A LEU 9 1 Y 1 A GLU -5 A GLU 10 1 Y 1 A VAL -4 A VAL 11 1 Y 1 A LEU -3 A LEU 12 1 Y 1 A PHE -2 A PHE 13 1 Y 1 A GLN -1 A GLN 14 1 Y 1 A GLY 0 A GLY 15 1 Y 1 A PRO 1 A PRO 16 1 Y 1 A LEU 2 A LEU 17 1 Y 1 A LEU 3 A LEU 18 1 Y 1 A SER 4 A SER 19 1 Y 1 A LYS 5 A LYS 20 1 Y 1 A ILE 6 A ILE 21 1 Y 1 A ASN 7 A ASN 22 1 Y 1 A SER 8 A SER 23 1 Y 1 A LEU 9 A LEU 24 1 Y 1 A ALA 10 A ALA 25 1 Y 1 A HIS 11 A HIS 26 1 Y 1 A LEU 12 A LEU 27 1 Y 1 A ARG 13 A ARG 28 1 Y 1 A ALA 14 A ALA 29 1 Y 1 A ALA 15 A ALA 30 1 Y 1 A PRO 16 A PRO 31 1 Y 1 A CYS 17 A CYS 32 1 Y 1 A ASN 18 A ASN 33 1 Y 1 A ASP 19 A ASP 34 1 Y 1 A LEU 20 A LEU 35 1 Y 1 A HIS 21 A HIS 36 1 Y 1 A ALA 22 A ALA 37 1 Y 1 A THR 23 A THR 38 1 Y 1 A LYS 24 A LYS 39 1 Y 1 A LEU 25 A LEU 40 1 Y 1 A ALA 26 A ALA 41 1 Y 1 A PRO 27 A PRO 42 1 Y 1 A GLY 28 A GLY 43 1 Y 1 A LYS 29 A LYS 44 1 Y 1 A GLU 30 A GLU 45 1 Y 1 A LYS 31 A LYS 46 1 Y 1 A SER 306 A SER 321 1 Y 1 A LEU 307 A LEU 322 1 Y 1 A SER 308 A SER 323 1 Y 1 A PRO 309 A PRO 324 1 Y 1 A GLY 310 A GLY 325 1 Y 1 A PRO 311 A PRO 326 1 Y 1 A SER 312 A SER 327 1 Y 1 A LYS 313 A LYS 328 1 Y 1 A LEU 34 165.71 -64.71 1 A SER 59 123.90 -72.42 1 A THR 84 -38.39 130.44 1 A SER 98 174.36 -142.11 1 A SER 101 -96.13 42.48 1 A ALA 138 -34.83 133.13 1 A ASP 167 -145.42 45.32 1 A ASP 186 69.03 78.23 1 A VAL 206 -59.26 -8.45 43.9 The Friedel pairs were used in phasing 0.2337 0.1788 0.182 0.182 2.7 48.8 1104 23099 23099 4.78 100.00 Random 1 isotropic THROUGHOUT 0 0 MOLECULAR REPLACEMENT Pim1-apo (in-house structure) Engh & Huber 2.7 48.8 98 2356 21 0 2237 0.006 0.961 19.46 0.3073 0.2088 2.8230 125 2637 8 0.2861 0.2045 2.9718 127 2712 8 0.2954 0.1906 3.1580 115 2736 8 0.2834 0.1757 3.4018 140 2751 8 0.1928 0.1688 3.7440 158 2782 8 0.2064 0.1518 4.2855 148 2775 8 0.1987 0.1527 5.3982 166 2783 8 0.2298 0.1828 48.8029 125 2819 8 63.6 2.7 84.5 3DCV 23099 2.0 0.078 1 7.5 7.5 100.0 0.257 2.7 2.8 2.9 7.5 98.9 refinement PHENIX (phenix.refine) data collection MAR345dtb data reduction MOSFLM data scaling SCALA phasing MOLREP Crystal structure of human Pim1 kinase complexed with 4-(4-hydroxy-3-methyl-phenyl)-6-phenylpyrimidin-2(1H)-one 1 N N 2 N N 3 N N A ASP 72 A ASP 87 HELX_P A ILE 74 A ILE 89 5 1 3 A MET 88 A MET 103 HELX_P A VAL 96 A VAL 111 1 2 9 A LEU 129 A LEU 144 HELX_P A GLU 135 A GLU 150 1 3 7 A GLN 140 A GLN 155 HELX_P A CYS 161 A CYS 176 1 4 22 A LYS 169 A LYS 184 HELX_P A GLU 171 A GLU 186 5 5 3 A THR 204 A THR 219 HELX_P A SER 208 A SER 223 5 6 5 A PRO 209 A PRO 224 HELX_P A HIS 216 A HIS 231 1 7 8 A HIS 219 A HIS 234 HELX_P A GLY 238 A GLY 253 1 8 20 A HIS 244 A HIS 259 HELX_P A GLY 251 A GLY 266 1 9 8 A SER 260 A SER 275 HELX_P A LEU 271 A LEU 286 1 10 12 A ARG 274 A ARG 289 HELX_P A ARG 278 A ARG 293 5 11 5 A THR 280 A THR 295 HELX_P A ASN 286 A ASN 301 1 12 7 A HIS 287 A HIS 302 HELX_P A GLN 291 A GLN 306 5 13 5 A LEU 295 A LEU 310 HELX_P A LEU 304 A LEU 319 1 14 10 covale 1.328 both A SER 260 A C SER 275 1_555 A SEP 261 A N SEP 276 1_555 covale 1.330 both A SEP 261 A C SEP 276 1_555 A GLU 262 A N GLU 277 1_555 TRANSFERASE Ser/Thr protein kinase, nucleotide-binding, phsphorylation, ATP-binding, cancer, oncogene, Alternative initiation, Cytoplasm, Manganese, Membrane, Metal-binding, Nucleus, Phosphoprotein, Polymorphism, Proto-oncogene, Serine/threonine-protein kinase, Transferase A GLU 124 A GLU 139 1 A PRO 125 A PRO 140 -6.30 PIM1_HUMAN UNP 1 93 P11309 LLSKINSLAHLRAAPCNDLHATKLAPGKEKEPLESQYQVGPLLGSGGFGSVYSGIRVSDNLPVAIKHVEKDRISDWGELP NGTRVPMEVVLLKKVSSGFSGVIRLLDWFERPDSFVLILERPEPVQDLFDFITERGALQEELARSFFWQVLEAVRHCHNC GVLHRDIKDENILIDLNRGELKLIDFGSGALLKDTVYTDFDGTRVYSPPEWIRYHRYHGRSAAVWSLGILLYDMVCGDIP FEHDEEIIRGQVFFRQRVSSECQHLIRWCLALRPSDRPTFEEIQNHPWMQDVLLPQETAEIHLHSLSPGPSK 93 404 3DCV 2 313 P11309 A 1 17 328 1 expression tag MET -14 3DCV A P11309 UNP 1 1 expression tag ALA -13 3DCV A P11309 UNP 2 1 expression tag HIS -12 3DCV A P11309 UNP 3 1 expression tag HIS -11 3DCV A P11309 UNP 4 1 expression tag HIS -10 3DCV A P11309 UNP 5 1 expression tag HIS -9 3DCV A P11309 UNP 6 1 expression tag HIS -8 3DCV A P11309 UNP 7 1 expression tag HIS -7 3DCV A P11309 UNP 8 1 expression tag LEU -6 3DCV A P11309 UNP 9 1 expression tag GLU -5 3DCV A P11309 UNP 10 1 expression tag VAL -4 3DCV A P11309 UNP 11 1 expression tag LEU -3 3DCV A P11309 UNP 12 1 expression tag PHE -2 3DCV A P11309 UNP 13 1 expression tag GLN -1 3DCV A P11309 UNP 14 1 expression tag GLY 0 3DCV A P11309 UNP 15 1 expression tag PRO 1 3DCV A P11309 UNP 16 5 2 3 2 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A TYR 38 A TYR 53 A SER 46 A SER 61 A SER 51 A SER 66 A ARG 57 A ARG 72 A LEU 62 A LEU 77 A GLU 70 A GLU 85 A SER 115 A SER 130 A GLU 121 A GLU 136 A LEU 106 A LEU 121 A ARG 112 A ARG 127 A TRP 77 A TRP 92 A GLU 79 A GLU 94 A ARG 85 A ARG 100 A PRO 87 A PRO 102 A VAL 126 A VAL 141 A ASP 128 A ASP 143 A ILE 173 A ILE 188 A ASP 176 A ASP 191 A GLU 181 A GLU 196 A LEU 184 A LEU 199 A VAL 163 A VAL 178 A LEU 164 A LEU 179 A ALA 191 A ALA 206 A LEU 192 A LEU 207 BINDING SITE FOR RESIDUE 55E A 500 A 55E 500 Software 9 A PHE 49 A PHE 64 9 1_555 A ALA 65 A ALA 80 9 1_555 A LYS 67 A LYS 82 9 1_555 A LEU 120 A LEU 135 9 1_555 A GLU 121 A GLU 136 9 1_555 A ARG 122 A ARG 137 9 1_555 A LEU 174 A LEU 189 9 1_555 A ILE 185 A ILE 200 9 1_555 A ASP 186 A ASP 201 9 1_555 170 P 65