0.014327 0.000000 0.002604 0.000000 0.014006 0.000000 0.000000 0.000000 0.014019 0.00000 0.00000 0.00000 Biela, A. Heine, A. Klebe, G. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 100.30 90.00 69.800 71.400 72.500 C21 H27 N4 O2 1 367.465 D-phenylalanyl-N-[(1-methylpyridinium-3-yl)methyl]-L-prolinamide peptide-like 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 C3 H8 O3 92.094 GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL non-polymer 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 Na 1 22.990 SODIUM ION non-polymer C8 H15 N O6 221.208 2-acetamido-2-deoxy-beta-D-glucopyranose N-acetyl-beta-D-glucosamine; 2-acetamido-2-deoxy-beta-D-glucose; 2-acetamido-2-deoxy-D-glucose; 2-acetamido-2-deoxy-glucose; N-ACETYL-D-GLUCOSAMINE D-saccharide, beta linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking O4 P -3 94.971 PHOSPHATE ION non-polymer 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 C9 H11 N O6 S 261.252 n O-SULFO-L-TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking N 1 N N N 2 R C N 3 N C N 4 N O N 5 N C Y 6 N C Y 7 N C Y 8 N C Y 9 N C Y 10 N C Y 11 N C N 12 N N N 13 S C N 14 N C N 15 N O N 16 N C N 17 N C N 18 N C N 19 N C Y 20 N C Y 21 N C N 22 N C Y 23 N C Y 24 N C Y 25 N C N 26 N N Y 27 N N 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 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 N N 56 S C N 57 N C N 58 N O N 59 N C 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 N N 69 S C N 70 N C N 71 N O N 72 N C N 73 N C N 74 N C N 75 N N N 76 N C N 77 N N N 78 N N N 79 N O N 80 N H N 81 N H N 82 N H N 83 N H 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 N N 96 S C N 97 N C N 98 N O N 99 N C N 100 N C N 101 N O N 102 N N N 103 N O N 104 N H N 105 N H N 106 N H N 107 N H N 108 N H N 109 N H N 110 N H N 111 N H N 112 N N N 113 S C N 114 N C N 115 N O N 116 N C N 117 N C N 118 N O N 119 N O N 120 N O N 121 N H N 122 N H N 123 N H N 124 N H N 125 N H N 126 N H N 127 N H N 128 N N N 129 R C N 130 N C N 131 N O N 132 N C N 133 N S N 134 N O 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 N N 143 S C N 144 N C N 145 N O N 146 N C N 147 N C N 148 N C N 149 N O N 150 N N N 151 N O N 152 N H 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 S C N 164 N C N 165 N O N 166 N C N 167 N C N 168 N C N 169 N O N 170 N O N 171 N O N 172 N H N 173 N H N 174 N H N 175 N H N 176 N H N 177 N H N 178 N H N 179 N H N 180 N H N 181 N N N 182 N C N 183 N C N 184 N O N 185 N O N 186 N H N 187 N H N 188 N H N 189 N H N 190 N H N 191 N C N 192 N O N 193 N C N 194 N O N 195 N C N 196 N O N 197 N H N 198 N H N 199 N H N 200 N H N 201 N H N 202 N H N 203 N H N 204 N H N 205 N N N 206 S C N 207 N C N 208 N O N 209 N C Y 210 N C Y 211 N N Y 212 N C Y 213 N C Y 214 N N N 215 N O N 216 N H N 217 N H N 218 N H N 219 N H N 220 N H N 221 N H N 222 N H N 223 N H N 224 N H N 225 N H N 226 N O N 227 N H N 228 N H N 229 N N N 230 S C N 231 N C N 232 N O N 233 S C N 234 N C N 235 N C N 236 N C N 237 N O N 238 N H N 239 N H N 240 N H N 241 N H N 242 N H N 243 N H N 244 N H N 245 N H N 246 N H N 247 N H N 248 N H N 249 N H N 250 N H N 251 N N N 252 S C N 253 N C N 254 N O N 255 N C N 256 N C N 257 N C N 258 N C N 259 N O N 260 N H N 261 N H N 262 N H N 263 N H N 264 N H N 265 N H N 266 N H N 267 N H N 268 N H N 269 N H N 270 N H N 271 N H N 272 N H N 273 N N N 274 S C N 275 N C N 276 N O N 277 N C N 278 N C N 279 N C N 280 N C N 281 N N N 282 N O N 283 N H N 284 N H N 285 N H N 286 N H N 287 N H N 288 N H N 289 N H N 290 N H N 291 N H N 292 N H N 293 N H N 294 N H N 295 N H N 296 N H N 297 N H N 298 N N N 299 S C N 300 N C N 301 N O N 302 N C N 303 N C N 304 N S N 305 N C N 306 N O N 307 N H N 308 N H N 309 N H N 310 N H N 311 N H N 312 N H N 313 N H N 314 N H N 315 N H N 316 N H N 317 N H N 318 N NA N 319 R C N 320 R C N 321 R C N 322 S C N 323 R C N 324 N C N 325 N C N 326 N C N 327 N N N 328 N O N 329 N O N 330 N O N 331 N O N 332 N O N 333 N O N 334 N H N 335 N H 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 H N 345 N H N 346 N H N 347 N H N 348 N H N 349 N N N 350 S C N 351 N C N 352 N O N 353 N C Y 354 N C Y 355 N C Y 356 N C Y 357 N C Y 358 N C Y 359 N C N 360 N O N 361 N H N 362 N H N 363 N H N 364 N H N 365 N H 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 P N 373 N O N 374 N O N 375 N O N 376 N O N 377 N N N 378 S C N 379 N C N 380 N O N 381 N C N 382 N C N 383 N C N 384 N O N 385 N H N 386 N H N 387 N H N 388 N H N 389 N H N 390 N H N 391 N H N 392 N H N 393 N H N 394 N N N 395 S C N 396 N C N 397 N O N 398 N C N 399 N O N 400 N O N 401 N H N 402 N H N 403 N H N 404 N H N 405 N H N 406 N H N 407 N H N 408 N N N 409 S C N 410 N C N 411 N O N 412 R C N 413 N O N 414 N C N 415 N O 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 N N 426 S C N 427 N C N 428 N O N 429 N C Y 430 N C Y 431 N C Y 432 N C Y 433 N N Y 434 N C Y 435 N C Y 436 N C Y 437 N C Y 438 N C N 439 N O 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 449 N H N 450 N H N 451 N H N 452 N N N 453 S C N 454 N C N 455 N O N 456 N C Y 457 N C Y 458 N C Y 459 N C Y 460 N C Y 461 N C Y 462 N C N 463 N O N 464 N O N 465 N H N 466 N H N 467 N H N 468 N H N 469 N H N 470 N H N 471 N H N 472 N H N 473 N H N 474 N H N 475 N H N 476 N N N 477 S C N 478 N C Y 479 N C Y 480 N C Y 481 N C Y 482 N C Y 483 N C Y 484 N C N 485 N O N 486 N S N 487 N O N 488 N O N 489 N O N 490 N C N 491 N O N 492 N O N 493 N H N 494 N H N 495 N H N 496 N H N 497 N H N 498 N H N 499 N H N 500 N H N 501 N H N 502 N H N 503 N H N 504 N N N 505 S C N 506 N C N 507 N O N 508 N C N 509 N C N 510 N C N 511 N O N 512 N H N 513 N H N 514 N H N 515 N H N 516 N H N 517 N H N 518 N H N 519 N H N 520 N H N 521 N H N 522 N H N 1 N sing Y 2 N doub Y 3 N sing N 4 N sing N 5 N sing N 6 N sing N 7 N sing N 8 N doub Y 9 N sing Y 10 N doub Y 11 N sing Y 12 N doub N 13 N sing N 14 N sing N 15 N sing N 16 N doub N 17 N sing N 18 N sing N 19 N sing Y 20 N doub Y 21 N sing N 22 N sing N 23 N sing N 24 N sing Y 25 N sing N 26 N sing Y 27 N sing Y 28 N doub Y 29 N doub N 30 N sing N 31 N sing N 32 N sing N 33 N sing 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 doub 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 sing N 71 N sing N 72 N sing N 73 N sing N 74 N sing N 75 N doub 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 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 doub 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 sing N 99 N sing N 100 N sing N 101 N doub 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 sing N 112 N sing N 113 N sing N 114 N sing N 115 N sing N 116 N sing N 117 N doub 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 sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N doub N 133 N sing N 134 N sing 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 sing N 164 N doub 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 N 177 N sing N 178 N sing N 179 N sing N 180 N sing N 181 N sing N 182 N doub N 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 sing 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 doub N 205 N sing N 206 N sing N 207 N sing N 208 N sing Y 209 N sing Y 210 N doub Y 211 N doub N 212 N sing Y 213 N sing N 214 N sing Y 215 N sing N 216 N sing 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 doub 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 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 doub 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 sing 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 doub 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 sing 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 doub 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 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 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 doub N 343 N sing N 344 N sing N 345 N sing N 346 N sing Y 347 N doub Y 348 N sing Y 349 N sing N 350 N sing Y 351 N doub N 352 N sing Y 353 N doub N 354 N sing Y 355 N sing N 356 N sing N 357 N sing N 358 N sing N 359 N doub 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 doub N 370 N sing N 371 N sing N 372 N sing N 373 N sing N 374 N sing N 375 N sing N 376 N sing N 377 N sing N 378 N sing N 379 N sing N 380 N sing N 381 N sing N 382 N sing N 383 N sing N 384 N sing N 385 N sing N 386 N doub 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 sing N 396 N sing N 397 N sing N 398 N sing N 399 N doub N 400 N sing N 401 N sing N 402 N sing N 403 N sing N 404 N sing N 405 N sing N 406 N sing N 407 N sing N 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 doub N 416 N sing N 417 N sing N 418 N sing N 419 N sing Y 420 N doub Y 421 N sing Y 422 N sing N 423 N sing Y 424 N doub Y 425 N sing Y 426 N sing N 427 N sing Y 428 N sing Y 429 N doub N 430 N sing Y 431 N doub N 432 N sing Y 433 N sing N 434 N sing N 435 N sing N 436 N sing N 437 N sing N 438 N sing N 439 N sing N 440 N sing N 441 N sing N 442 N sing N 443 N doub N 444 N sing N 445 N sing N 446 N sing N 447 N sing Y 448 N doub Y 449 N sing Y 450 N sing N 451 N sing Y 452 N doub N 453 N sing Y 454 N doub N 455 N sing Y 456 N sing N 457 N sing N 458 N sing N 459 N sing N 460 N sing N 461 N sing N 462 N sing N 463 N sing N 464 N sing N 465 N sing N 466 N sing N 467 N sing N 468 N sing N 469 N sing Y 470 N doub Y 471 N sing Y 472 N sing N 473 N sing Y 474 N doub N 475 N sing Y 476 N doub N 477 N sing Y 478 N sing N 479 N sing N 480 N sing N 481 N sing N 482 N doub N 483 N doub N 484 N sing N 485 N sing N 486 N doub N 487 N sing N 488 N sing N 489 N sing N 490 N sing N 491 N sing N 492 N sing N 493 N sing N 494 N sing N 495 N doub N 496 N sing N 497 N sing N 498 N sing N 499 N sing N 500 N sing N 501 N sing N 502 N sing N 503 N sing N 504 N sing N 505 N sing N 506 N sing UK J.Mol.Biol. JMOBAK 0070 0022-2836 418 350 366 10.1016/j.jmb.2012.01.054 22366545 Impact of ligand and protein desolvation on ligand binding to the S1 pocket of thrombin 2012 10.2210/pdb3qto/pdb pdb_00003qto 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 107 1 Collimating mirror CCD 2009-06-22 MARMOSAIC 225 mm CCD Bartels Monochromator SINGLE WAVELENGTH M x-ray 1 1.00 1.0 X06DA SLS 1.00 SYNCHROTRON SLS BEAMLINE X06DA 4096.534 Thrombin light chain 3.4.21.5 1 nat polymer 29780.219 Thrombin heavy chain 3.4.21.5 1 nat polymer 1662.683 Hirudin variant-2 residues in UNP 60-72 1 syn polymer 221.208 2-acetamido-2-deoxy-beta-D-glucopyranose 1 man non-polymer 367.465 D-phenylalanyl-N-[(1-methylpyridinium-3-yl)methyl]-L-prolinamide 1 syn non-polymer 92.094 GLYCEROL 1 syn non-polymer 94.971 PHOSPHATE ION 1 syn non-polymer 22.990 SODIUM ION 2 syn non-polymer 18.015 water 366 nat water no no TFGSGEADCGLRPLFEKKSLEDKTERELLESYIDGR TFGSGEADCGLRPLFEKKSLEDKTERELLESYIDGR L polypeptide(L) no no IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISM LEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETWTANVGKGQPSVL QVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFY THVFRLKKWIQKVIDQFGE IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISM LEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETWTANVGKGQPSVL QVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFY THVFRLKKWIQKVIDQFGE H polypeptide(L) no yes NGDFEEIPEE(TYS)LQ NGDFEEIPEEYLQ I 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 human sample 9606 Homo sapiens human sample 9606 Homo sapiens 1 2.50 50.81 VAPOR DIFFUSION, HANGING DROP 7.5 15% PEG8000, 20mM sodium phophate, 175mM sodium chloride, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.15K 277.15 chem_comp entity pdbx_chem_comp_identifier pdbx_entity_nonpoly struct_conn struct_site struct_site_gen chem_comp chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model chem_comp_atom chem_comp_bond repository Initial release Carbohydrate remediation repository Remediation Database references Other Data collection Derived calculations Structure summary Data collection Database references Refinement description Structure summary Data collection 1 0 2012-02-29 1 1 2012-06-20 1 2 2012-12-12 1 3 2020-07-29 1 4 2023-11-01 1 5 2023-12-06 _chem_comp.name _chem_comp.type _entity.pdbx_description _pdbx_entity_nonpoly.name _struct_conn.pdbx_dist_value _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_role _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _chem_comp.pdbx_synonyms _database_2.pdbx_DOI _database_2.pdbx_database_accession _chem_comp_atom.atom_id _chem_comp_bond.atom_id_2 DGlcpNAcb N-acetyl-b-D-glucopyranosamine b-D-GlcpNAc GlcNAc RCSB Y PDBJ 2011-02-23 REL REL NAG 2-acetamido-2-deoxy-beta-D-glucopyranose 10P D-phenylalanyl-N-[(1-methylpyridinium-3-yl)methyl]-L-prolinamide GOL GLYCEROL PO4 PHOSPHATE ION NA SODIUM ION HOH water Synthetic Fragment of Hirudin From Hirudo Medicinalis 6421 Medicinal leech Hirudo medicinalis sample 1H8D PDB experimental model Thrombin inhibitor D-PHENYLALANYL-N-[(1-METHYLPYRIDINIUM-3-YL)METHYL]-L-PROLINAMIDE Peptide-like NAG 260 4 NAG G NAG 260 H 10P 1001 5 10P 10P 1001 H GOL 1501 6 GOL GOL 1501 H PO4 1801 7 PO4 PO4 1801 H NA 2001 8 NA NA 2001 H NA 2002 8 NA NA 2002 H HOH 3001 9 HOH HOH 3001 L HOH 3002 9 HOH HOH 3002 L HOH 3003 9 HOH HOH 3003 L HOH 3004 9 HOH HOH 3004 L HOH 3005 9 HOH HOH 3005 L HOH 3006 9 HOH HOH 3006 L HOH 3007 9 HOH HOH 3007 L HOH 3008 9 HOH HOH 3008 L HOH 3009 9 HOH HOH 3009 L HOH 3010 9 HOH HOH 3010 L HOH 3011 9 HOH HOH 3011 L HOH 3012 9 HOH HOH 3012 L HOH 3013 9 HOH HOH 3013 L HOH 3014 9 HOH HOH 3014 L HOH 3015 9 HOH HOH 3015 L HOH 3016 9 HOH HOH 3016 L HOH 3017 9 HOH HOH 3017 L HOH 3018 9 HOH HOH 3018 L HOH 3019 9 HOH HOH 3019 L HOH 3020 9 HOH HOH 3020 L HOH 3021 9 HOH HOH 3021 L HOH 3022 9 HOH HOH 3022 L HOH 3023 9 HOH HOH 3023 L HOH 3024 9 HOH HOH 3024 L HOH 3025 9 HOH HOH 3025 L HOH 3026 9 HOH HOH 3026 L HOH 3027 9 HOH HOH 3027 L HOH 3028 9 HOH HOH 3028 L HOH 3029 9 HOH HOH 3029 L HOH 3030 9 HOH HOH 3030 L HOH 3031 9 HOH HOH 3031 L HOH 3032 9 HOH HOH 3032 L HOH 3033 9 HOH HOH 3033 L HOH 3034 9 HOH HOH 3034 L HOH 3035 9 HOH HOH 3035 L HOH 3036 9 HOH HOH 3036 L HOH 3037 9 HOH HOH 3037 L HOH 3038 9 HOH HOH 3038 L HOH 3039 9 HOH HOH 3039 L HOH 3040 9 HOH HOH 3040 L HOH 3041 9 HOH HOH 3041 L HOH 3042 9 HOH HOH 3042 L HOH 3043 9 HOH HOH 3043 L HOH 3044 9 HOH HOH 3044 L HOH 3045 9 HOH HOH 3045 L HOH 3046 9 HOH HOH 3046 L HOH 3047 9 HOH HOH 3047 H HOH 3048 9 HOH HOH 3048 H HOH 3049 9 HOH HOH 3049 H HOH 3050 9 HOH HOH 3050 H HOH 3051 9 HOH HOH 3051 H HOH 3052 9 HOH HOH 3052 H HOH 3053 9 HOH HOH 3053 H HOH 3054 9 HOH HOH 3054 H HOH 3055 9 HOH HOH 3055 H HOH 3056 9 HOH HOH 3056 H HOH 3057 9 HOH HOH 3057 H HOH 3058 9 HOH HOH 3058 H HOH 3059 9 HOH HOH 3059 H HOH 3060 9 HOH HOH 3060 H HOH 3061 9 HOH HOH 3061 H HOH 3062 9 HOH HOH 3062 H HOH 3063 9 HOH HOH 3063 H HOH 3064 9 HOH HOH 3064 H HOH 3065 9 HOH HOH 3065 H HOH 3066 9 HOH HOH 3066 H HOH 3067 9 HOH HOH 3067 H HOH 3068 9 HOH HOH 3068 H HOH 3069 9 HOH HOH 3069 H HOH 3070 9 HOH HOH 3070 H HOH 3071 9 HOH HOH 3071 H HOH 3072 9 HOH HOH 3072 H HOH 3073 9 HOH HOH 3073 H HOH 3074 9 HOH HOH 3074 H HOH 3075 9 HOH HOH 3075 H HOH 3076 9 HOH HOH 3076 H HOH 3077 9 HOH HOH 3077 H HOH 3078 9 HOH HOH 3078 H HOH 3079 9 HOH HOH 3079 H HOH 3080 9 HOH HOH 3080 H HOH 3081 9 HOH HOH 3081 H HOH 3082 9 HOH HOH 3082 H HOH 3083 9 HOH HOH 3083 H HOH 3084 9 HOH HOH 3084 H HOH 3085 9 HOH HOH 3085 H HOH 3086 9 HOH HOH 3086 H HOH 3087 9 HOH HOH 3087 H HOH 3088 9 HOH HOH 3088 H HOH 3089 9 HOH HOH 3089 H HOH 3090 9 HOH HOH 3090 H HOH 3091 9 HOH HOH 3091 H HOH 3092 9 HOH HOH 3092 H HOH 3093 9 HOH HOH 3093 H HOH 3094 9 HOH HOH 3094 H HOH 3095 9 HOH HOH 3095 H HOH 3096 9 HOH HOH 3096 H HOH 3097 9 HOH HOH 3097 H HOH 3098 9 HOH HOH 3098 H HOH 3099 9 HOH HOH 3099 H HOH 3100 9 HOH HOH 3100 H HOH 3101 9 HOH HOH 3101 H HOH 3102 9 HOH HOH 3102 H HOH 3103 9 HOH HOH 3103 H HOH 3104 9 HOH HOH 3104 H HOH 3105 9 HOH HOH 3105 H HOH 3106 9 HOH HOH 3106 H HOH 3107 9 HOH HOH 3107 H HOH 3108 9 HOH HOH 3108 H HOH 3109 9 HOH HOH 3109 H HOH 3110 9 HOH HOH 3110 H HOH 3111 9 HOH HOH 3111 H HOH 3112 9 HOH HOH 3112 H HOH 3113 9 HOH HOH 3113 H HOH 3114 9 HOH HOH 3114 H HOH 3115 9 HOH HOH 3115 H HOH 3116 9 HOH HOH 3116 H HOH 3117 9 HOH HOH 3117 H HOH 3118 9 HOH HOH 3118 H HOH 3119 9 HOH HOH 3119 H HOH 3120 9 HOH HOH 3120 H HOH 3121 9 HOH HOH 3121 H HOH 3122 9 HOH HOH 3122 H HOH 3123 9 HOH HOH 3123 H HOH 3124 9 HOH HOH 3124 H HOH 3125 9 HOH HOH 3125 H HOH 3126 9 HOH HOH 3126 H HOH 3127 9 HOH HOH 3127 H HOH 3128 9 HOH HOH 3128 H HOH 3129 9 HOH HOH 3129 H HOH 3130 9 HOH HOH 3130 H HOH 3131 9 HOH HOH 3131 H HOH 3132 9 HOH HOH 3132 H HOH 3133 9 HOH HOH 3133 H HOH 3134 9 HOH HOH 3134 H HOH 3135 9 HOH HOH 3135 H HOH 3136 9 HOH HOH 3136 H HOH 3137 9 HOH HOH 3137 H HOH 3138 9 HOH HOH 3138 H HOH 3139 9 HOH HOH 3139 H HOH 3140 9 HOH HOH 3140 H HOH 3141 9 HOH HOH 3141 H HOH 3142 9 HOH HOH 3142 H HOH 3143 9 HOH HOH 3143 H HOH 3144 9 HOH HOH 3144 H HOH 3145 9 HOH HOH 3145 H HOH 3146 9 HOH HOH 3146 H HOH 3147 9 HOH HOH 3147 H HOH 3148 9 HOH HOH 3148 H HOH 3149 9 HOH HOH 3149 H HOH 3150 9 HOH HOH 3150 H HOH 3151 9 HOH HOH 3151 H HOH 3152 9 HOH HOH 3152 H HOH 3153 9 HOH HOH 3153 H HOH 3154 9 HOH HOH 3154 H HOH 3155 9 HOH HOH 3155 H HOH 3156 9 HOH HOH 3156 H HOH 3157 9 HOH HOH 3157 H HOH 3158 9 HOH HOH 3158 H HOH 3159 9 HOH HOH 3159 H HOH 3160 9 HOH HOH 3160 H HOH 3161 9 HOH HOH 3161 H HOH 3162 9 HOH HOH 3162 H HOH 3163 9 HOH HOH 3163 H HOH 3164 9 HOH HOH 3164 H HOH 3165 9 HOH HOH 3165 H HOH 3166 9 HOH HOH 3166 H HOH 3167 9 HOH HOH 3167 H HOH 3168 9 HOH HOH 3168 H HOH 3169 9 HOH HOH 3169 H HOH 3170 9 HOH HOH 3170 H HOH 3171 9 HOH HOH 3171 H HOH 3172 9 HOH HOH 3172 H HOH 3173 9 HOH HOH 3173 H HOH 3174 9 HOH HOH 3174 H HOH 3175 9 HOH HOH 3175 H HOH 3176 9 HOH HOH 3176 H HOH 3177 9 HOH HOH 3177 H HOH 3178 9 HOH HOH 3178 H HOH 3179 9 HOH HOH 3179 H HOH 3180 9 HOH HOH 3180 H HOH 3181 9 HOH HOH 3181 H HOH 3182 9 HOH HOH 3182 H HOH 3183 9 HOH HOH 3183 H HOH 3184 9 HOH HOH 3184 H HOH 3185 9 HOH HOH 3185 H HOH 3186 9 HOH HOH 3186 H HOH 3187 9 HOH HOH 3187 H HOH 3188 9 HOH HOH 3188 H HOH 3189 9 HOH HOH 3189 H HOH 3190 9 HOH HOH 3190 H HOH 3191 9 HOH HOH 3191 H HOH 3192 9 HOH HOH 3192 H HOH 3193 9 HOH HOH 3193 H HOH 3194 9 HOH HOH 3194 H HOH 3195 9 HOH HOH 3195 H HOH 3196 9 HOH HOH 3196 H HOH 3197 9 HOH HOH 3197 H HOH 3198 9 HOH HOH 3198 H HOH 3199 9 HOH HOH 3199 H HOH 3200 9 HOH HOH 3200 H HOH 3201 9 HOH HOH 3201 H HOH 3202 9 HOH HOH 3202 H HOH 3203 9 HOH HOH 3203 H HOH 3204 9 HOH HOH 3204 H HOH 3205 9 HOH HOH 3205 H HOH 3206 9 HOH HOH 3206 H HOH 3207 9 HOH HOH 3207 H HOH 3208 9 HOH HOH 3208 H HOH 3209 9 HOH HOH 3209 H HOH 3210 9 HOH HOH 3210 H HOH 3211 9 HOH HOH 3211 H HOH 3212 9 HOH HOH 3212 H HOH 3213 9 HOH HOH 3213 H HOH 3214 9 HOH HOH 3214 H HOH 3215 9 HOH HOH 3215 H HOH 3216 9 HOH HOH 3216 H HOH 3217 9 HOH HOH 3217 H HOH 3218 9 HOH HOH 3218 H HOH 3219 9 HOH HOH 3219 H HOH 3220 9 HOH HOH 3220 H HOH 3221 9 HOH HOH 3221 H HOH 3222 9 HOH HOH 3222 H HOH 3223 9 HOH HOH 3223 H HOH 3224 9 HOH HOH 3224 H HOH 3225 9 HOH HOH 3225 H HOH 3226 9 HOH HOH 3226 H HOH 3227 9 HOH HOH 3227 H HOH 3228 9 HOH HOH 3228 H HOH 3229 9 HOH HOH 3229 H HOH 3230 9 HOH HOH 3230 H HOH 3231 9 HOH HOH 3231 H HOH 3232 9 HOH HOH 3232 H HOH 3233 9 HOH HOH 3233 H HOH 3234 9 HOH HOH 3234 H HOH 3235 9 HOH HOH 3235 H HOH 3236 9 HOH HOH 3236 H HOH 3237 9 HOH HOH 3237 H HOH 3238 9 HOH HOH 3238 H HOH 3239 9 HOH HOH 3239 H HOH 3240 9 HOH HOH 3240 H HOH 3241 9 HOH HOH 3241 H HOH 3242 9 HOH HOH 3242 H HOH 3243 9 HOH HOH 3243 H HOH 3244 9 HOH HOH 3244 H HOH 3245 9 HOH HOH 3245 H HOH 3246 9 HOH HOH 3246 H HOH 3247 9 HOH HOH 3247 H HOH 3248 9 HOH HOH 3248 H HOH 3249 9 HOH HOH 3249 H HOH 3250 9 HOH HOH 3250 H HOH 3251 9 HOH HOH 3251 H HOH 3252 9 HOH HOH 3252 H HOH 3253 9 HOH HOH 3253 H HOH 3254 9 HOH HOH 3254 H HOH 3255 9 HOH HOH 3255 H HOH 3256 9 HOH HOH 3256 H HOH 3257 9 HOH HOH 3257 H HOH 3258 9 HOH HOH 3258 H HOH 3259 9 HOH HOH 3259 H HOH 3260 9 HOH HOH 3260 H HOH 3261 9 HOH HOH 3261 H HOH 3262 9 HOH HOH 3262 H HOH 3263 9 HOH HOH 3263 H HOH 3264 9 HOH HOH 3264 H HOH 3265 9 HOH HOH 3265 H HOH 3266 9 HOH HOH 3266 H HOH 3267 9 HOH HOH 3267 H HOH 3268 9 HOH HOH 3268 H HOH 3269 9 HOH HOH 3269 H HOH 3270 9 HOH HOH 3270 H HOH 3271 9 HOH HOH 3271 H HOH 3272 9 HOH HOH 3272 H HOH 3273 9 HOH HOH 3273 H HOH 3274 9 HOH HOH 3274 H HOH 3275 9 HOH HOH 3275 H HOH 3276 9 HOH HOH 3276 H HOH 3277 9 HOH HOH 3277 H HOH 3278 9 HOH HOH 3278 H HOH 3279 9 HOH HOH 3279 H HOH 3280 9 HOH HOH 3280 H HOH 3281 9 HOH HOH 3281 H HOH 3282 9 HOH HOH 3282 H HOH 3283 9 HOH HOH 3283 H HOH 3284 9 HOH HOH 3284 H HOH 3285 9 HOH HOH 3285 H HOH 3286 9 HOH HOH 3286 H HOH 3287 9 HOH HOH 3287 H HOH 3288 9 HOH HOH 3288 H HOH 3289 9 HOH HOH 3289 H HOH 3290 9 HOH HOH 3290 H HOH 3291 9 HOH HOH 3291 H HOH 3292 9 HOH HOH 3292 H HOH 3293 9 HOH HOH 3293 H HOH 3294 9 HOH HOH 3294 H HOH 3295 9 HOH HOH 3295 H HOH 3296 9 HOH HOH 3296 H HOH 3297 9 HOH HOH 3297 H HOH 3298 9 HOH HOH 3298 H HOH 3299 9 HOH HOH 3299 H HOH 3300 9 HOH HOH 3300 H HOH 3301 9 HOH HOH 3301 H HOH 3302 9 HOH HOH 3302 H HOH 3303 9 HOH HOH 3303 H HOH 3304 9 HOH HOH 3304 H HOH 3305 9 HOH HOH 3305 H HOH 3306 9 HOH HOH 3306 H HOH 3307 9 HOH HOH 3307 H HOH 3308 9 HOH HOH 3308 H HOH 3309 9 HOH HOH 3309 H HOH 3310 9 HOH HOH 3310 H HOH 3311 9 HOH HOH 3311 H HOH 3312 9 HOH HOH 3312 H HOH 3313 9 HOH HOH 3313 H HOH 3314 9 HOH HOH 3314 H HOH 3315 9 HOH HOH 3315 H HOH 3316 9 HOH HOH 3316 H HOH 3317 9 HOH HOH 3317 H HOH 3318 9 HOH HOH 3318 H HOH 3319 9 HOH HOH 3319 H HOH 3320 9 HOH HOH 3320 H HOH 3321 9 HOH HOH 3321 H HOH 3322 9 HOH HOH 3322 H HOH 3323 9 HOH HOH 3323 H HOH 3324 9 HOH HOH 3324 H HOH 3325 9 HOH HOH 3325 H HOH 3326 9 HOH HOH 3326 H HOH 3327 9 HOH HOH 3327 H HOH 3328 9 HOH HOH 3328 H HOH 3329 9 HOH HOH 3329 H HOH 3330 9 HOH HOH 3330 H HOH 3331 9 HOH HOH 3331 H HOH 3332 9 HOH HOH 3332 H HOH 3333 9 HOH HOH 3333 H HOH 3334 9 HOH HOH 3334 H HOH 3335 9 HOH HOH 3335 H HOH 3336 9 HOH HOH 3336 H HOH 3337 9 HOH HOH 3337 H HOH 3338 9 HOH HOH 3338 H HOH 3339 9 HOH HOH 3339 H HOH 3340 9 HOH HOH 3340 H HOH 3341 9 HOH HOH 3341 H HOH 3342 9 HOH HOH 3342 H HOH 3343 9 HOH HOH 3343 H HOH 3344 9 HOH HOH 3344 H HOH 3345 9 HOH HOH 3345 H HOH 3346 9 HOH HOH 3346 H HOH 3347 9 HOH HOH 3347 H HOH 3348 9 HOH HOH 3348 H HOH 3349 9 HOH HOH 3349 H HOH 3350 9 HOH HOH 3350 H HOH 3351 9 HOH HOH 3351 H HOH 3352 9 HOH HOH 3352 H HOH 3353 9 HOH HOH 3353 H HOH 3354 9 HOH HOH 3354 H HOH 3355 9 HOH HOH 3355 H HOH 3356 9 HOH HOH 3356 H HOH 3357 9 HOH HOH 3357 H HOH 3358 9 HOH HOH 3358 H HOH 3359 9 HOH HOH 3359 H HOH 3360 9 HOH HOH 3360 H HOH 3361 9 HOH HOH 3361 I HOH 3362 9 HOH HOH 3362 I HOH 3363 9 HOH HOH 3363 I HOH 3364 9 HOH HOH 3364 I HOH 3365 9 HOH HOH 3365 I HOH 3366 9 HOH HOH 3366 I n 1 H 1 L n 2 G 1 L n 3 F 1 L n 4 E 1 L n 5 D 1 L GLU 1 n 6 C GLU 1 L ALA 1 n 7 B ALA 1 L ASP 1 n 8 A ASP 1 L CYS 1 n 9 CYS 1 L GLY 2 n 10 GLY 2 L LEU 3 n 11 LEU 3 L ARG 4 n 12 ARG 4 L PRO 5 n 13 PRO 5 L LEU 6 n 14 LEU 6 L PHE 7 n 15 PHE 7 L GLU 8 n 16 GLU 8 L LYS 9 n 17 LYS 9 L LYS 10 n 18 LYS 10 L SER 11 n 19 SER 11 L LEU 12 n 20 LEU 12 L GLU 13 n 21 GLU 13 L ASP 14 n 22 ASP 14 L LYS 14 n 23 A LYS 14 L THR 14 n 24 B THR 14 L GLU 14 n 25 C GLU 14 L ARG 14 n 26 D ARG 14 L GLU 14 n 27 E GLU 14 L LEU 14 n 28 F LEU 14 L LEU 14 n 29 G LEU 14 L GLU 14 n 30 H GLU 14 L SER 14 n 31 I SER 14 L TYR 14 n 32 J TYR 14 L ILE 14 n 33 K ILE 14 L n 34 L 14 L n 35 M 14 L n 36 15 L ILE 16 n 1 ILE 16 H VAL 17 n 2 VAL 17 H GLU 18 n 3 GLU 18 H GLY 19 n 4 GLY 19 H SER 20 n 5 SER 20 H ASP 21 n 6 ASP 21 H ALA 22 n 7 ALA 22 H GLU 23 n 8 GLU 23 H ILE 24 n 9 ILE 24 H GLY 25 n 10 GLY 25 H MET 26 n 11 MET 26 H SER 27 n 12 SER 27 H PRO 28 n 13 PRO 28 H TRP 29 n 14 TRP 29 H GLN 30 n 15 GLN 30 H VAL 31 n 16 VAL 31 H MET 32 n 17 MET 32 H LEU 33 n 18 LEU 33 H PHE 34 n 19 PHE 34 H ARG 35 n 20 ARG 35 H LYS 36 n 21 LYS 36 H SER 36 n 22 A SER 36 H PRO 37 n 23 PRO 37 H GLN 38 n 24 GLN 38 H GLU 39 n 25 GLU 39 H LEU 40 n 26 LEU 40 H LEU 41 n 27 LEU 41 H CYS 42 n 28 CYS 42 H GLY 43 n 29 GLY 43 H ALA 44 n 30 ALA 44 H SER 45 n 31 SER 45 H LEU 46 n 32 LEU 46 H ILE 47 n 33 ILE 47 H SER 48 n 34 SER 48 H ASP 49 n 35 ASP 49 H ARG 50 n 36 ARG 50 H TRP 51 n 37 TRP 51 H VAL 52 n 38 VAL 52 H LEU 53 n 39 LEU 53 H THR 54 n 40 THR 54 H ALA 55 n 41 ALA 55 H ALA 56 n 42 ALA 56 H HIS 57 n 43 HIS 57 H CYS 58 n 44 CYS 58 H LEU 59 n 45 LEU 59 H LEU 60 n 46 LEU 60 H TYR 60 n 47 A TYR 60 H PRO 60 n 48 B PRO 60 H PRO 60 n 49 C PRO 60 H TRP 60 n 50 D TRP 60 H ASP 60 n 51 E ASP 60 H LYS 60 n 52 F LYS 60 H ASN 60 n 53 G ASN 60 H PHE 60 n 54 H PHE 60 H THR 60 n 55 I THR 60 H GLU 61 n 56 GLU 61 H ASN 62 n 57 ASN 62 H ASP 63 n 58 ASP 63 H LEU 64 n 59 LEU 64 H LEU 65 n 60 LEU 65 H VAL 66 n 61 VAL 66 H ARG 67 n 62 ARG 67 H ILE 68 n 63 ILE 68 H GLY 69 n 64 GLY 69 H LYS 70 n 65 LYS 70 H HIS 71 n 66 HIS 71 H SER 72 n 67 SER 72 H ARG 73 n 68 ARG 73 H THR 74 n 69 THR 74 H ARG 75 n 70 ARG 75 H TYR 76 n 71 TYR 76 H GLU 77 n 72 GLU 77 H ARG 77 n 73 A ARG 77 H ASN 78 n 74 ASN 78 H ILE 79 n 75 ILE 79 H GLU 80 n 76 GLU 80 H LYS 81 n 77 LYS 81 H ILE 82 n 78 ILE 82 H SER 83 n 79 SER 83 H MET 84 n 80 MET 84 H LEU 85 n 81 LEU 85 H GLU 86 n 82 GLU 86 H LYS 87 n 83 LYS 87 H ILE 88 n 84 ILE 88 H TYR 89 n 85 TYR 89 H ILE 90 n 86 ILE 90 H HIS 91 n 87 HIS 91 H PRO 92 n 88 PRO 92 H ARG 93 n 89 ARG 93 H TYR 94 n 90 TYR 94 H ASN 95 n 91 ASN 95 H TRP 96 n 92 TRP 96 H ARG 97 n 93 ARG 97 H GLU 97 n 94 A GLU 97 H ASN 98 n 95 ASN 98 H LEU 99 n 96 LEU 99 H ASP 100 n 97 ASP 100 H ARG 101 n 98 ARG 101 H ASP 102 n 99 ASP 102 H ILE 103 n 100 ILE 103 H ALA 104 n 101 ALA 104 H LEU 105 n 102 LEU 105 H MET 106 n 103 MET 106 H LYS 107 n 104 LYS 107 H LEU 108 n 105 LEU 108 H LYS 109 n 106 LYS 109 H LYS 110 n 107 LYS 110 H PRO 111 n 108 PRO 111 H VAL 112 n 109 VAL 112 H ALA 113 n 110 ALA 113 H PHE 114 n 111 PHE 114 H SER 115 n 112 SER 115 H ASP 116 n 113 ASP 116 H TYR 117 n 114 TYR 117 H ILE 118 n 115 ILE 118 H HIS 119 n 116 HIS 119 H PRO 120 n 117 PRO 120 H VAL 121 n 118 VAL 121 H CYS 122 n 119 CYS 122 H LEU 123 n 120 LEU 123 H PRO 124 n 121 PRO 124 H ASP 125 n 122 ASP 125 H ARG 126 n 123 ARG 126 H GLU 127 n 124 GLU 127 H THR 128 n 125 THR 128 H ALA 129 n 126 ALA 129 H ALA 129 n 127 A ALA 129 H SER 129 n 128 B SER 129 H LEU 129 n 129 C LEU 129 H LEU 130 n 130 LEU 130 H GLN 131 n 131 GLN 131 H ALA 132 n 132 ALA 132 H GLY 133 n 133 GLY 133 H TYR 134 n 134 TYR 134 H LYS 135 n 135 LYS 135 H GLY 136 n 136 GLY 136 H ARG 137 n 137 ARG 137 H VAL 138 n 138 VAL 138 H THR 139 n 139 THR 139 H GLY 140 n 140 GLY 140 H TRP 141 n 141 TRP 141 H GLY 142 n 142 GLY 142 H ASN 143 n 143 ASN 143 H LEU 144 n 144 LEU 144 H LYS 145 n 145 LYS 145 H GLU 146 n 146 GLU 146 H THR 147 n 147 THR 147 H n 148 148 H n 149 149 H n 150 A 149 H n 151 B 149 H n 152 C 149 H n 153 D 149 H n 154 E 149 H GLY 150 n 155 GLY 150 H GLN 151 n 156 GLN 151 H PRO 152 n 157 PRO 152 H SER 153 n 158 SER 153 H VAL 154 n 159 VAL 154 H LEU 155 n 160 LEU 155 H GLN 156 n 161 GLN 156 H VAL 157 n 162 VAL 157 H VAL 158 n 163 VAL 158 H ASN 159 n 164 ASN 159 H LEU 160 n 165 LEU 160 H PRO 161 n 166 PRO 161 H ILE 162 n 167 ILE 162 H VAL 163 n 168 VAL 163 H GLU 164 n 169 GLU 164 H ARG 165 n 170 ARG 165 H PRO 166 n 171 PRO 166 H VAL 167 n 172 VAL 167 H CYS 168 n 173 CYS 168 H LYS 169 n 174 LYS 169 H ASP 170 n 175 ASP 170 H SER 171 n 176 SER 171 H THR 172 n 177 THR 172 H ARG 173 n 178 ARG 173 H ILE 174 n 179 ILE 174 H ARG 175 n 180 ARG 175 H ILE 176 n 181 ILE 176 H THR 177 n 182 THR 177 H ASP 178 n 183 ASP 178 H ASN 179 n 184 ASN 179 H MET 180 n 185 MET 180 H PHE 181 n 186 PHE 181 H CYS 182 n 187 CYS 182 H ALA 183 n 188 ALA 183 H GLY 184 n 189 GLY 184 H TYR 184 n 190 A TYR 184 H LYS 185 n 191 LYS 185 H PRO 186 n 192 PRO 186 H ASP 186 n 193 A ASP 186 H GLU 186 n 194 B GLU 186 H GLY 186 n 195 C GLY 186 H LYS 186 n 196 D LYS 186 H ARG 187 n 197 ARG 187 H GLY 188 n 198 GLY 188 H ASP 189 n 199 ASP 189 H ALA 190 n 200 ALA 190 H CYS 191 n 201 CYS 191 H GLU 192 n 202 GLU 192 H GLY 193 n 203 GLY 193 H ASP 194 n 204 ASP 194 H SER 195 n 205 SER 195 H GLY 196 n 206 GLY 196 H GLY 197 n 207 GLY 197 H PRO 198 n 208 PRO 198 H PHE 199 n 209 PHE 199 H VAL 200 n 210 VAL 200 H MET 201 n 211 MET 201 H LYS 202 n 212 LYS 202 H SER 203 n 213 SER 203 H PRO 204 n 214 PRO 204 H PHE 204 n 215 A PHE 204 H ASN 204 n 216 B ASN 204 H ASN 205 n 217 ASN 205 H ARG 206 n 218 ARG 206 H TRP 207 n 219 TRP 207 H TYR 208 n 220 TYR 208 H GLN 209 n 221 GLN 209 H MET 210 n 222 MET 210 H GLY 211 n 223 GLY 211 H ILE 212 n 224 ILE 212 H VAL 213 n 225 VAL 213 H SER 214 n 226 SER 214 H TRP 215 n 227 TRP 215 H GLY 216 n 228 GLY 216 H GLU 217 n 229 GLU 217 H GLY 219 n 230 GLY 219 H CYS 220 n 231 CYS 220 H ASP 221 n 232 ASP 221 H ARG 221 n 233 A ARG 221 H ASP 222 n 234 ASP 222 H GLY 223 n 235 GLY 223 H LYS 224 n 236 LYS 224 H TYR 225 n 237 TYR 225 H GLY 226 n 238 GLY 226 H PHE 227 n 239 PHE 227 H TYR 228 n 240 TYR 228 H THR 229 n 241 THR 229 H HIS 230 n 242 HIS 230 H VAL 231 n 243 VAL 231 H PHE 232 n 244 PHE 232 H ARG 233 n 245 ARG 233 H LEU 234 n 246 LEU 234 H LYS 235 n 247 LYS 235 H LYS 236 n 248 LYS 236 H TRP 237 n 249 TRP 237 H ILE 238 n 250 ILE 238 H GLN 239 n 251 GLN 239 H LYS 240 n 252 LYS 240 H VAL 241 n 253 VAL 241 H ILE 242 n 254 ILE 242 H ASP 243 n 255 ASP 243 H GLN 244 n 256 GLN 244 H PHE 245 n 257 PHE 245 H GLY 246 n 258 GLY 246 H n 259 247 H n 1 553 I n 2 554 I ASP 555 n 3 ASP 555 I PHE 556 n 4 PHE 556 I GLU 557 n 5 GLU 557 I GLU 558 n 6 GLU 558 I ILE 559 n 7 ILE 559 I PRO 560 n 8 PRO 560 I GLU 561 n 9 GLU 561 I GLU 562 n 10 GLU 562 I TYS 563 n 11 TYS 563 I LEU 564 n 12 LEU 564 I GLN 565 n 13 GLN 565 I 1.3884 -0.8253 0.3047 1.0841 -0.1775 0.8725 0.1203 0.1292 -0.0530 -0.0603 -0.0911 0.0077 0.0909 0.0752 -0.0273 0.0626 0.0258 -0.0037 0.0603 -0.0133 0.0575 refined 14.0190 -1.0728 19.6849 X-RAY DIFFRACTION 0.1012 0.0512 -0.0658 0.0829 -0.0782 0.0844 0.1614 0.3681 -0.0713 -0.3433 -0.0904 -0.0505 -0.0413 0.0386 -0.0639 0.4081 0.1888 0.0438 0.5139 -0.0644 0.1425 refined 12.0950 -1.1737 -3.5256 X-RAY DIFFRACTION 0.2146 -0.3105 0.0415 0.4610 0.0034 0.3346 0.0030 -0.0675 0.0081 0.0705 -0.0566 0.0743 -0.1163 -0.1412 0.0402 0.0911 0.0403 0.0117 0.0899 -0.0011 0.0991 refined 0.0572 11.1219 23.7824 X-RAY DIFFRACTION H 16 H 246 X-RAY DIFFRACTION 1 (chain H and resid 16:246) I 555 I 565 X-RAY DIFFRACTION 2 (chain I and resid 555:565) L 1 L 14 X-RAY DIFFRACTION 3 (chain L and resid 1C:14K) author_and_software_defined_assembly PISA 3 trimeric 3390 -14 12890 G H ASN 60 GLYCOSYLATION SITE B ASN 53 ASN I TYS 563 O-SULFO-L-TYROSINE C TYS 11 TYR 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 H N SER 20 B N SER 5 H O VAL 157 B O VAL 162 H O VAL 158 B O VAL 163 H N VAL 138 B N VAL 138 H N ARG 137 B N ARG 137 H O VAL 200 B O VAL 210 H N MET 201 B N MET 211 H O TYR 208 B O TYR 220 H N TRP 215 B N TRP 227 H O PHE 227 B O PHE 239 H O TYR 228 B O TYR 240 H N PHE 181 B N PHE 186 H N LEU 33 B N LEU 18 H O LEU 41 B O LEU 27 H N SER 45 B N SER 31 H O LEU 53 B O LEU 39 H N THR 54 B N THR 40 H O ALA 104 B O ALA 101 H O LYS 107 B O LYS 104 H N GLU 86 B N GLU 82 H O LYS 81 B O LYS 77 H N ILE 68 B N ILE 63 H O LEU 65 B O LEU 60 H N PHE 34 B N PHE 19 A H N TYR 60 B N TYR 47 F H O LYS 60 B O LYS 52 1 H HOH 3100 K HOH C 1 L CG GLU 1 A CG GLU 6 1 Y C 1 L CD GLU 1 A CD GLU 6 1 Y C 1 L OE1 GLU 1 A OE1 GLU 6 1 Y C 1 L OE2 GLU 1 A OE2 GLU 6 1 Y A 1 H OG SER 36 B OG SER 22 1 Y 1 H CG LYS 110 B CG LYS 107 1 Y 1 H CD LYS 110 B CD LYS 107 1 Y 1 H CE LYS 110 B CE LYS 107 1 Y 1 H NZ LYS 110 B NZ LYS 107 1 Y A 1 H CG ASP 186 B CG ASP 193 1 Y A 1 H OD1 ASP 186 B OD1 ASP 193 1 Y A 1 H OD2 ASP 186 B OD2 ASP 193 1 Y 1 H CG LYS 236 B CG LYS 248 1 Y 1 H CD LYS 236 B CD LYS 248 1 Y 1 H CE LYS 236 B CE LYS 248 1 Y 1 H NZ LYS 236 B NZ LYS 248 1 Y 1 I CG GLU 558 C CG GLU 6 1 Y 1 I CD GLU 558 C CD GLU 6 1 Y 1 I OE1 GLU 558 C OE1 GLU 6 1 Y 1 I OE2 GLU 558 C OE2 GLU 6 1 Y 1 I CG GLN 565 C CG GLN 13 1 Y 1 I CD GLN 565 C CD GLN 13 1 Y 1 I OE1 GLN 565 C OE1 GLN 13 1 Y 1 I NE2 GLN 565 C NE2 GLN 13 1 Y H 1 L THR 1 A THR 1 1 Y G 1 L PHE 1 A PHE 2 1 Y F 1 L GLY 1 A GLY 3 1 Y E 1 L SER 1 A SER 4 1 Y D 1 L GLY 1 A GLY 5 1 Y L 1 L ASP 14 A ASP 34 1 Y M 1 L GLY 14 A GLY 35 1 Y 1 L ARG 15 A ARG 36 1 Y 1 H TRP 148 B TRP 148 1 Y 1 H THR 149 B THR 149 1 Y A 1 H ALA 149 B ALA 150 1 Y B 1 H ASN 149 B ASN 151 1 Y C 1 H VAL 149 B VAL 152 1 Y D 1 H GLY 149 B GLY 153 1 Y E 1 H LYS 149 B LYS 154 1 Y 1 H GLU 247 B GLU 259 1 Y 1 I ASN 553 C ASN 1 1 Y 1 I GLY 554 C GLY 2 1 Y 1 H H O O HOH HOH 3109 3156 1.95 1 L L O O HOH HOH 3041 3044 2.00 1 H H O O HOH HOH 3134 3137 2.03 1 L H O O HOH HOH 3045 3157 2.04 1 H H O O HOH HOH 3172 3175 2.12 1 H H O O HOH HOH 3127 3136 2.14 1 L H O O HOH HOH 3046 3241 2.16 1 L L O O HOH HOH 3042 3043 2.19 1 L PHE 7 -130.93 -89.77 A 1 H TYR 60 -154.71 83.35 G 1 H ASN 60 -158.42 82.01 1 H HIS 71 -128.90 -62.08 1 H ILE 79 -127.11 -62.69 A 1 H GLU 97 -116.45 -71.03 1 H SER 195 -37.70 133.63 83.370 20.6408 5.680 2.3727 0.0000 -2.3632 -1.5382 0.0000 -0.8346 0.1650 0.1552 0.1558 0.1558 1.520 35.666 2584 53637 51053 5.06 94.83 1.000 0.240 0.9134 0.15 Random 1 Free R MOLECULAR REPLACEMENT 15.6100 0.83 1.10 1H8D Engh & Huber FLAT BULK SOLVENT MODEL 59.212 0.400 1.520 35.666 366 2760 54 0 2340 0.008 2529 1.121 3424 0.075 358 0.005 438 15.531 1003 0.2095 0.2075 1.5743 230 4315 4545 10 85.0000 0.2135 0.1914 1.6374 264 4554 4818 10 90.0000 0.2071 0.1778 1.7119 242 4688 4930 10 92.0000 0.1770 0.1573 1.8021 244 4755 4999 10 93.0000 0.1664 0.1496 1.9150 246 4905 5151 10 95.0000 0.1500 0.1435 2.0629 242 4959 5201 10 97.0000 0.1641 0.1466 2.2705 274 5025 5299 10 98.0000 0.1762 0.1566 2.5989 263 5051 5314 10 99.0000 0.1742 0.1628 3.2740 281 5081 5362 10 99.0000 0.1404 0.1430 35.6756 298 5136 5434 10 99.0000 1.52 50 3QTO 53781 53781 0.065 1 17 3.1 99.8 1.52 1.55 2.2 2645 0.497 1 2.9 99.5 data collection MAR345dtb phasing PHASER refinement PHENIX (phenix.refine: 1.6.4_486) data reduction HKL-2000 data scaling HKL-2000 Thrombin Inhibition by Pyridin Derivatives 1 N N 2 N N 3 N N 4 N N 5 N N 6 N N 7 N N 8 N N 8 N N 9 N N 9 N N 9 N N L PHE 7 A PHE 15 HELX_P L SER 11 A SER 19 5 1 5 L THR 14 A THR 24 HELX_P L TYR 14 A TYR 32 1 2 9 B J H ALA 55 B ALA 41 HELX_P H CYS 58 B CYS 44 5 3 4 H PRO 60 B PRO 48 HELX_P H ASP 60 B ASP 51 5 4 4 B E H THR 60 B THR 55 HELX_P H ASN 62 B ASN 57 5 5 3 I H ASP 125 B ASP 122 HELX_P H LEU 130 B LEU 130 1 6 9 H GLU 164 B GLU 169 HELX_P H SER 171 B SER 176 1 7 8 H LYS 185 B LYS 191 HELX_P H GLY 186 B GLY 195 5 8 5 C H LEU 234 B LEU 246 HELX_P H GLY 246 B GLY 258 1 9 13 I PRO 560 C PRO 8 HELX_P I LEU 564 C LEU 12 5 10 5 disulf 2.048 L CYS 1 A SG CYS 9 1_555 H CYS 122 B SG CYS 119 1_555 disulf 2.037 H CYS 42 B SG CYS 28 1_555 H CYS 58 B SG CYS 44 1_555 disulf 2.029 H CYS 168 B SG CYS 173 1_555 H CYS 182 B SG CYS 187 1_555 disulf 2.031 H CYS 191 B SG CYS 201 1_555 H CYS 220 B SG CYS 231 1_555 covale 1.425 one G G N-Glycosylation H ASN 60 B ND2 ASN 53 1_555 H NAG 260 D C1 NAG 1_555 covale 1.329 both I GLU 562 C C GLU 10 1_555 I TYS 563 C N TYS 11 1_555 covale 1.327 both I TYS 563 C C TYS 11 1_555 I LEU 564 C N LEU 12 1_555 HYDROLASE/HYDROLASE INHIBITOR Serine Protease, Kringle, Hydrolase, Blood Coagulation, Blood Clotting, Convertion of Fibrinogen to Fibrin, Cleavage on Pairs of Basic Residues, Blood Clotting Inhibitor, Thrombin Inhibitor, Glycosylation, Blood, HYDROLASE-HYDROLASE INHIBITOR complex H SER 36 B SER 22 A 1 H PRO 37 B PRO 23 -3.06 THRB_HUMAN UNP 1 328 P00734 TFGSGEADCGLRPLFEKKSLEDKTERELLESYIDGR THRB_HUMAN UNP 2 364 P00734 IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISM LEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETWTANVGKGQPSVL QVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFY THVFRLKKWIQKVIDQFGE HIRV2_HIRME UNP 3 60 P09945 NGDFEEIPEEYLQ 328 363 3QTO 1 15 P00734 H L 1 1 36 364 622 3QTO 16 247 P00734 H 2 1 259 60 72 3QTO 553 565 P09945 I 3 1 13 7 7 2 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel H SER 20 B SER 5 H ASP 21 B ASP 6 H GLN 156 B GLN 161 H PRO 161 B PRO 166 H LYS 135 B LYS 135 H GLY 140 B GLY 140 H PRO 198 B PRO 208 H LYS 202 B LYS 212 H TRP 207 B TRP 219 H TRP 215 B TRP 227 H GLY 226 B GLY 238 H HIS 230 B HIS 242 H MET 180 B MET 185 H ALA 183 B ALA 188 H GLN 30 B GLN 15 H ARG 35 B ARG 20 H GLU 39 B GLU 25 H LEU 46 B LEU 32 H TRP 51 B TRP 37 H THR 54 B THR 40 H ALA 104 B ALA 101 H LEU 108 B LEU 105 H LYS 81 B LYS 77 H ILE 90 B ILE 86 H LEU 64 B LEU 59 H ILE 68 B ILE 63 H GLN 30 B GLN 15 H ARG 35 B ARG 20 H LEU 60 B LEU 46 H TYR 60 B TYR 47 A H LYS 60 B LYS 52 H ASN 60 B ASN 53 F G 5 C 1 2 1