0.019646 0.000000 0.000000 0.000000 0.014859 0.000000 0.000000 0.000000 0.020161 0.00000 0.00000 0.00000 RESIDUES 162 - 164 IN WILD-TYPE AND ALL MUTANT LYSOZYMES ARE EXTREMELY MOBILE. THUS THE COORDINATES FOR THESE RESIDUES ARE VERY UNRELIABLE. THIS ENTRY DOES NOT INCLUDE RESIDUES 163 AND 164. Kuroki, R. Weaver, L.H. Matthews, B.W. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 90.00 90.00 50.900 67.300 49.600 C3 H7 N O2 89.093 y ALANINE L-peptide linking C7 H14 N2 O4 190.197 n 2,6-DIAMINOPIMELIC ACID 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 C2 H6 O S 78.133 BETA-MERCAPTOETHANOL non-polymer C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C3 H7 N O2 89.093 D-ALANINE D-peptide linking C5 H9 N O4 147.129 GAMMA-D-GLUTAMIC ACID D-GLUTAMIC ACID D-gamma-peptide, C-delta 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 C11 H19 N O8 293.270 N-acetyl-alpha-muramic acid N-acetyl-muramic acid; N-ACETYLMURAMIC ACID D-saccharide, alpha linking 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 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 N N 2 S C N 3 N C N 4 N O N 5 N C N 6 N O N 7 N H N 8 N H N 9 N H N 10 N H N 11 N H N 12 N H N 13 N H N 14 N C N 15 S C N 16 N C N 17 N C N 18 N C N 19 R C N 20 N C N 21 N O N 22 N O N 23 N O N 24 N O N 25 N N N 26 N N 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 H N 37 N H N 38 N H N 39 N H N 40 N H N 41 N N N 42 S C N 43 N C N 44 N O N 45 N C N 46 N C N 47 N C N 48 N N N 49 N C N 50 N N N 51 N N N 52 N O 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 H N 60 N H 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 O N 75 N N N 76 N O N 77 N H N 78 N H N 79 N H N 80 N H N 81 N H N 82 N H N 83 N H N 84 N H N 85 N N N 86 S C N 87 N C N 88 N O N 89 N C N 90 N C N 91 N O N 92 N O N 93 N O N 94 N H N 95 N H N 96 N H N 97 N H N 98 N H N 99 N H N 100 N H N 101 N C N 102 N C N 103 N O N 104 N S 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 N N 112 R C N 113 N C N 114 N O N 115 N C N 116 N S N 117 N O N 118 N H N 119 N H N 120 N H N 121 N H N 122 N H N 123 N H N 124 N H N 125 N N N 126 R C N 127 N C N 128 N C N 129 N O N 130 N O N 131 N H N 132 N H N 133 N H N 134 N H N 135 N H N 136 N H N 137 N H N 138 N N N 139 R C N 140 N C N 141 N O N 142 N C N 143 N C N 144 N C N 145 N O N 146 N O N 147 N O N 148 N H N 149 N H N 150 N H N 151 N H N 152 N H N 153 N H N 154 N H N 155 N H N 156 N H N 157 N N N 158 S C N 159 N C N 160 N O N 161 N C N 162 N C N 163 N C N 164 N O N 165 N N 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 H N 173 N H N 174 N H N 175 N H N 176 N H N 177 N N N 178 S C N 179 N C N 180 N O N 181 N C N 182 N C N 183 N C N 184 N O N 185 N O N 186 N O 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 H N 194 N H N 195 N H N 196 N N N 197 N C N 198 N C N 199 N O N 200 N O N 201 N H N 202 N H N 203 N H N 204 N H N 205 N H N 206 N N N 207 S C N 208 N C N 209 N O N 210 N C Y 211 N C Y 212 N N Y 213 N C Y 214 N C Y 215 N N N 216 N O 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 H N 227 N O N 228 N H N 229 N H N 230 N N N 231 S C N 232 N C N 233 N O N 234 S C N 235 N C N 236 N C N 237 N C N 238 N O 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 H N 252 N N N 253 S C N 254 N C N 255 N O N 256 N C N 257 N C N 258 N C N 259 N C N 260 N O 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 H N 274 N N N 275 S C N 276 N C N 277 N O N 278 N C N 279 N C N 280 N C N 281 N C N 282 N N N 283 N O 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 H N 299 N N N 300 S C N 301 N C N 302 N O N 303 N C N 304 N C N 305 N S N 306 N C N 307 N O 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 H N 319 S 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 R C N 328 N C N 329 N C N 330 N O N 331 N O N 332 N O N 333 N O N 334 N O N 335 N O N 336 N O N 337 N O N 338 N N 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 H N 350 N H 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 R C N 359 R C N 360 R C N 361 S C N 362 R C N 363 N C N 364 N C N 365 N C N 366 N N N 367 N O N 368 N O N 369 N O N 370 N O N 371 N O N 372 N O 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 H N 380 N H N 381 N H N 382 N H N 383 N H N 384 N H N 385 N H N 386 N H N 387 N H N 388 N N N 389 S C N 390 N C N 391 N O N 392 N C Y 393 N C Y 394 N C Y 395 N C Y 396 N C Y 397 N C Y 398 N C N 399 N O 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 H N 407 N H N 408 N H N 409 N H N 410 N H N 411 N N N 412 S C N 413 N C N 414 N O N 415 N C N 416 N C N 417 N C 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 N N 429 S C N 430 N C N 431 N O N 432 N C N 433 N O N 434 N O 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 N N 443 S C N 444 N C N 445 N O N 446 R C N 447 N O N 448 N C N 449 N O N 450 N H N 451 N H N 452 N H N 453 N H N 454 N H N 455 N H N 456 N H N 457 N H N 458 N H N 459 N N N 460 S C N 461 N C N 462 N O N 463 N C Y 464 N C Y 465 N C Y 466 N C Y 467 N N Y 468 N C Y 469 N C Y 470 N C Y 471 N C Y 472 N C N 473 N O N 474 N H N 475 N H N 476 N H N 477 N H N 478 N H N 479 N H N 480 N H N 481 N H N 482 N H N 483 N H N 484 N H N 485 N H N 486 N N N 487 S C N 488 N C N 489 N O N 490 N C Y 491 N C Y 492 N C Y 493 N C Y 494 N C Y 495 N C Y 496 N C N 497 N O N 498 N O N 499 N H N 500 N H N 501 N H N 502 N H N 503 N H N 504 N H N 505 N H N 506 N H N 507 N H N 508 N H N 509 N H N 510 N N N 511 S C N 512 N C N 513 N O N 514 N C N 515 N C N 516 N C N 517 N O N 518 N H N 519 N H N 520 N H N 521 N H N 522 N H N 523 N H N 524 N H N 525 N H N 526 N H N 527 N H N 528 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 doub N 8 N sing N 9 N sing N 10 N sing N 11 N sing N 12 N sing N 13 N sing N 14 N doub N 15 N sing N 16 N sing N 17 N sing N 18 N sing N 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 sing N 26 N sing N 27 N sing N 28 N sing N 29 N sing N 30 N sing N 31 N doub 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 doub 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 doub 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 sing N 71 N doub N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N doub 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 doub N 88 N sing N 89 N sing N 90 N sing N 91 N sing N 92 N doub 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 sing N 102 N sing N 103 N sing 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 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 sing 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 doub 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 doub N 145 N sing 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 sing N 154 N doub 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 doub 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 sing N 170 N sing N 171 N sing N 172 N sing N 173 N doub 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 doub N 182 N sing 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 doub 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 doub N 201 N sing N 202 N sing N 203 N sing N 204 N sing Y 205 N sing Y 206 N doub Y 207 N doub N 208 N sing Y 209 N sing N 210 N sing Y 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 sing N 220 N sing N 221 N sing N 222 N sing N 223 N doub 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 sing N 241 N sing N 242 N sing N 243 N sing N 244 N doub 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 sing N 262 N sing N 263 N sing N 264 N sing N 265 N doub 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 sing N 286 N sing N 287 N sing N 288 N sing N 289 N doub 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 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 doub N 318 N sing N 319 N doub 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 sing 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 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 sing 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 doub 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 sing N 374 N sing N 375 N sing N 376 N sing N 377 N doub N 378 N sing N 379 N sing N 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 doub N 387 N sing Y 388 N doub N 389 N sing Y 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 sing N 400 N doub 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 sing N 416 N sing N 417 N doub 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 sing N 426 N sing N 427 N sing N 428 N sing N 429 N sing N 430 N doub N 431 N sing N 432 N sing N 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 sing N 444 N sing N 445 N sing N 446 N doub N 447 N sing N 448 N sing N 449 N sing N 450 N sing Y 451 N doub Y 452 N sing Y 453 N sing N 454 N sing Y 455 N doub Y 456 N sing Y 457 N sing N 458 N sing Y 459 N sing Y 460 N doub N 461 N sing Y 462 N doub N 463 N sing Y 464 N sing N 465 N sing N 466 N sing N 467 N sing N 468 N sing N 469 N sing N 470 N sing N 471 N sing N 472 N sing N 473 N sing N 474 N doub N 475 N sing N 476 N sing N 477 N sing N 478 N sing Y 479 N doub Y 480 N sing Y 481 N sing N 482 N sing Y 483 N doub N 484 N sing Y 485 N doub N 486 N sing Y 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 sing N 496 N sing N 497 N sing N 498 N doub 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 N 507 N sing N 508 N sing N 509 N sing US Science SCIEAS 0038 0036-8075 262 2030 2033 8266098 A covalent enzyme-substrate intermediate with saccharide distortion in a mutant T4 lysozyme. 1993 UK J.Mol.Biol. JMOBAK 0070 0022-2836 193 189 Structure of Bacteriophage T4 Lysozyme Refined at 1.7 Angstroms Resolution 1987 10.2210/pdb148l/pdb pdb_0000148l 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 1 x-ray 1 1.0 18656.373 T4 LYSOZYME 3.2.1.17 1 man polymer 461.466 SUBSTRATE CLEAVED FROM CELL WALL OF ESCHERICHIA COLI 1 nat polymer 496.463 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-N-acetyl-alpha-muramic acid 1 man branched 78.133 BETA-MERCAPTOETHANOL 1 syn non-polymer 18.015 water 140 nat water no no MNIFEMLRIDEGLRLKIYKDTEGYYEIGIGHLLTKSPSLNAAKSELDKAIGRNTNGVITKDEAEKLFNQDVDAAVRGILR NAKLKPVYDSLDAVRRAALINMVFQMGETGVAGFTNSLRMLQQKRWDEAAVNLAKSRWYNQTPNRAKRVITTFRTGTWDA YKNL MNIFEMLRIDEGLRLKIYKDTEGYYEIGIGHLLTKSPSLNAAKSELDKAIGRNTNGVITKDEAEKLFNQDVDAAVRGILR NAKLKPVYDSLDAVRRAALINMVFQMGETGVAGFTNSLRMLQQKRWDEAAVNLAKSRWYNQTPNRAKRVITTFRTGTWDA YKNL E polypeptide(L) no yes A(FGA)(API)(DAL) AEKA S 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 T4-like viruses Enterobacteria phage T4 sensu lato sample 10665 Enterobacteria phage T4 PLASMID M13 sample 562 ESCHERICHIA COLI CELL WALL 2.17 43.25 pdbx_database_status struct_conf struct_conf_type atom_site chem_comp entity pdbx_branch_scheme pdbx_chem_comp_identifier pdbx_entity_branch pdbx_entity_branch_descriptor pdbx_entity_branch_link pdbx_entity_branch_list pdbx_entity_nonpoly pdbx_nonpoly_scheme pdbx_struct_assembly_gen pdbx_validate_close_contact struct_asym struct_conn struct_ref_seq_dif struct_site struct_site_gen atom_site chem_comp chem_comp_atom chem_comp_bond database_2 struct_conn repository Initial release Carbohydrate remediation repository Remediation Version format compliance Version format compliance Atomic model Database references Derived calculations Non-polymer description Structure summary Derived calculations Other Advisory Atomic model Data collection Database references Derived calculations Structure summary Atomic model Data collection Database references Derived calculations Structure summary 1 0 1994-04-30 1 1 2008-05-22 1 2 2011-07-13 1 3 2011-07-27 1 4 2017-11-29 2 0 2020-07-29 3 0 2023-11-15 _pdbx_database_status.process_site _atom_site.B_iso_or_equiv _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.auth_asym_id _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.label_asym_id _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_entity_id _atom_site.type_symbol _chem_comp.name _chem_comp.type _pdbx_struct_assembly_gen.asym_id_list _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _struct_conn.pdbx_dist_value _struct_conn.pdbx_leaving_atom_flag _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 _struct_ref_seq_dif.details _atom_site.auth_atom_id _atom_site.label_atom_id _chem_comp.pdbx_synonyms _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_conn.pdbx_leaving_atom_flag _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr2_label_atom_id S MUB 165 n A MUB 1 S NAG 164 n A NAG 2 a-D-GlcpNAc3<C3O2> MurNAc DGlcpNAcb N-acetyl-b-D-glucopyranosamine b-D-GlcpNAc GlcNAc SHEET THERE ARE SEVERAL SUBTLE ASPECTS OF THE SECONDARY STRUCTURE OF THIS MOLECULE WHICH CANNOT CONVENIENTLY BE REPRESENTED IN THE HELIX AND SHEET RECORDS BELOW. THESE ASPECTS INFLUENCE THE REPRESENTATION OF HELIX 6 AND STRAND 3 OF SHEET *S1*. THE PAPER J.MOL.BIOL., V. 118, P. 81, 1978 BE CONSULTED FOR THESE SUBTLETIES. Y BNL 1993-10-27 REL REL oligosaccharide DGlcpNAcb1-4MurNAc1-ROH 3 GMML 1.0 Glycam Condensed Sequence WURCS=2.0/2,2,1/[a2122h-1a_1-5_2*NCC/3=O_3*OC^RCO/4=O/3C][a2122h-1b_1-5_2*NCC/3=O]/1-2/a4-b1 3 PDB2Glycan 1.1.0 WURCS [][D-1-deoxy-GlcpNAc]{[(3+1)][&lt;C3O1&gt;]{}[(4+1)][b-D-GlcpNAc]{}} 3 PDB-CARE LINUCS C1 O4 NAG MUB 2 1 3 O1 HO4 sing n n BME BETA-MERCAPTOETHANOL HOH water BME 174 4 BME BME 174 E HOH 175 5 HOH HOH 175 E HOH 176 5 HOH HOH 176 E HOH 177 5 HOH HOH 177 E HOH 178 5 HOH HOH 178 E HOH 179 5 HOH HOH 179 E HOH 180 5 HOH HOH 180 E HOH 181 5 HOH HOH 181 E HOH 183 5 HOH HOH 183 E HOH 184 5 HOH HOH 184 E HOH 185 5 HOH HOH 185 E HOH 186 5 HOH HOH 186 E HOH 187 5 HOH HOH 187 E HOH 188 5 HOH HOH 188 E HOH 189 5 HOH HOH 189 E HOH 191 5 HOH HOH 191 E HOH 192 5 HOH HOH 192 E HOH 193 5 HOH HOH 193 E HOH 194 5 HOH HOH 194 E HOH 195 5 HOH HOH 195 E HOH 196 5 HOH HOH 196 E HOH 197 5 HOH HOH 197 E HOH 200 5 HOH HOH 200 E HOH 202 5 HOH HOH 202 E HOH 203 5 HOH HOH 203 E HOH 204 5 HOH HOH 204 E HOH 206 5 HOH HOH 206 E HOH 208 5 HOH HOH 208 E HOH 209 5 HOH HOH 209 E HOH 211 5 HOH HOH 211 E HOH 213 5 HOH HOH 213 E HOH 214 5 HOH HOH 214 E HOH 215 5 HOH HOH 215 E HOH 217 5 HOH HOH 217 E HOH 223 5 HOH HOH 223 E HOH 226 5 HOH HOH 226 E HOH 229 5 HOH HOH 229 E HOH 235 5 HOH HOH 235 E HOH 236 5 HOH HOH 236 E HOH 238 5 HOH HOH 238 E HOH 240 5 HOH HOH 240 E HOH 242 5 HOH HOH 242 E HOH 244 5 HOH HOH 244 E HOH 245 5 HOH HOH 245 E HOH 247 5 HOH HOH 247 E HOH 249 5 HOH HOH 249 E HOH 250 5 HOH HOH 250 E HOH 251 5 HOH HOH 251 E HOH 253 5 HOH HOH 253 E HOH 254 5 HOH HOH 254 E HOH 256 5 HOH HOH 256 E HOH 258 5 HOH HOH 258 E HOH 263 5 HOH HOH 263 E HOH 265 5 HOH HOH 265 E HOH 268 5 HOH HOH 268 E HOH 273 5 HOH HOH 273 E HOH 274 5 HOH HOH 274 E HOH 275 5 HOH HOH 275 E HOH 276 5 HOH HOH 276 E HOH 280 5 HOH HOH 280 E HOH 283 5 HOH HOH 283 E HOH 285 5 HOH HOH 285 E HOH 289 5 HOH HOH 289 E HOH 290 5 HOH HOH 290 E HOH 293 5 HOH HOH 293 E HOH 299 5 HOH HOH 299 E HOH 300 5 HOH HOH 300 E HOH 301 5 HOH HOH 301 E HOH 302 5 HOH HOH 302 E HOH 303 5 HOH HOH 303 E HOH 304 5 HOH HOH 304 E HOH 311 5 HOH HOH 311 E HOH 316 5 HOH HOH 316 E HOH 317 5 HOH HOH 317 E HOH 320 5 HOH HOH 320 E HOH 321 5 HOH HOH 321 E HOH 326 5 HOH HOH 326 E HOH 329 5 HOH HOH 329 E HOH 330 5 HOH HOH 330 E HOH 332 5 HOH HOH 332 E HOH 333 5 HOH HOH 333 E HOH 334 5 HOH HOH 334 E HOH 376 5 HOH HOH 376 E HOH 377 5 HOH HOH 377 E HOH 378 5 HOH HOH 378 E HOH 379 5 HOH HOH 379 E HOH 381 5 HOH HOH 381 E HOH 391 5 HOH HOH 391 E HOH 394 5 HOH HOH 394 E HOH 397 5 HOH HOH 397 E HOH 398 5 HOH HOH 398 E HOH 403 5 HOH HOH 403 E HOH 407 5 HOH HOH 407 E HOH 434 5 HOH HOH 434 E HOH 435 5 HOH HOH 435 E HOH 436 5 HOH HOH 436 E HOH 441 5 HOH HOH 441 E HOH 442 5 HOH HOH 442 E HOH 443 5 HOH HOH 443 E HOH 444 5 HOH HOH 444 E HOH 445 5 HOH HOH 445 E HOH 446 5 HOH HOH 446 E HOH 451 5 HOH HOH 451 E HOH 453 5 HOH HOH 453 E HOH 454 5 HOH HOH 454 E HOH 455 5 HOH HOH 455 E HOH 457 5 HOH HOH 457 E HOH 473 5 HOH HOH 473 E HOH 477 5 HOH HOH 477 E HOH 478 5 HOH HOH 478 E HOH 488 5 HOH HOH 488 E HOH 489 5 HOH HOH 489 E HOH 490 5 HOH HOH 490 E HOH 491 5 HOH HOH 491 E HOH 493 5 HOH HOH 493 E HOH 495 5 HOH HOH 495 E HOH 497 5 HOH HOH 497 E HOH 512 5 HOH HOH 512 E HOH 513 5 HOH HOH 513 E HOH 514 5 HOH HOH 514 E HOH 515 5 HOH HOH 515 E HOH 517 5 HOH HOH 517 E HOH 532 5 HOH HOH 532 E HOH 533 5 HOH HOH 533 E HOH 534 5 HOH HOH 534 E HOH 537 5 HOH HOH 537 E HOH 538 5 HOH HOH 538 E HOH 542 5 HOH HOH 542 E HOH 182 5 HOH HOH 182 S HOH 190 5 HOH HOH 190 S HOH 207 5 HOH HOH 207 S HOH 212 5 HOH HOH 212 S HOH 225 5 HOH HOH 225 S HOH 239 5 HOH HOH 239 S HOH 270 5 HOH HOH 270 S HOH 281 5 HOH HOH 281 S HOH 306 5 HOH HOH 306 S HOH 324 5 HOH HOH 324 S HOH 456 5 HOH HOH 456 S HOH 496 5 HOH HOH 496 S HOH 498 5 HOH HOH 498 S MET 1 n 1 MET 1 E ASN 2 n 2 ASN 2 E ILE 3 n 3 ILE 3 E PHE 4 n 4 PHE 4 E GLU 5 n 5 GLU 5 E MET 6 n 6 MET 6 E LEU 7 n 7 LEU 7 E ARG 8 n 8 ARG 8 E ILE 9 n 9 ILE 9 E ASP 10 n 10 ASP 10 E GLU 11 n 11 GLU 11 E GLY 12 n 12 GLY 12 E LEU 13 n 13 LEU 13 E ARG 14 n 14 ARG 14 E LEU 15 n 15 LEU 15 E LYS 16 n 16 LYS 16 E ILE 17 n 17 ILE 17 E TYR 18 n 18 TYR 18 E LYS 19 n 19 LYS 19 E ASP 20 n 20 ASP 20 E THR 21 n 21 THR 21 E GLU 22 n 22 GLU 22 E GLY 23 n 23 GLY 23 E TYR 24 n 24 TYR 24 E TYR 25 n 25 TYR 25 E GLU 26 n 26 GLU 26 E ILE 27 n 27 ILE 27 E GLY 28 n 28 GLY 28 E ILE 29 n 29 ILE 29 E GLY 30 n 30 GLY 30 E HIS 31 n 31 HIS 31 E LEU 32 n 32 LEU 32 E LEU 33 n 33 LEU 33 E THR 34 n 34 THR 34 E LYS 35 n 35 LYS 35 E SER 36 n 36 SER 36 E PRO 37 n 37 PRO 37 E SER 38 n 38 SER 38 E LEU 39 n 39 LEU 39 E ASN 40 n 40 ASN 40 E ALA 41 n 41 ALA 41 E ALA 42 n 42 ALA 42 E LYS 43 n 43 LYS 43 E SER 44 n 44 SER 44 E GLU 45 n 45 GLU 45 E LEU 46 n 46 LEU 46 E ASP 47 n 47 ASP 47 E LYS 48 n 48 LYS 48 E ALA 49 n 49 ALA 49 E ILE 50 n 50 ILE 50 E GLY 51 n 51 GLY 51 E ARG 52 n 52 ARG 52 E ASN 53 n 53 ASN 53 E THR 54 n 54 THR 54 E ASN 55 n 55 ASN 55 E GLY 56 n 56 GLY 56 E VAL 57 n 57 VAL 57 E ILE 58 n 58 ILE 58 E THR 59 n 59 THR 59 E LYS 60 n 60 LYS 60 E ASP 61 n 61 ASP 61 E GLU 62 n 62 GLU 62 E ALA 63 n 63 ALA 63 E GLU 64 n 64 GLU 64 E LYS 65 n 65 LYS 65 E LEU 66 n 66 LEU 66 E PHE 67 n 67 PHE 67 E ASN 68 n 68 ASN 68 E GLN 69 n 69 GLN 69 E ASP 70 n 70 ASP 70 E VAL 71 n 71 VAL 71 E ASP 72 n 72 ASP 72 E ALA 73 n 73 ALA 73 E ALA 74 n 74 ALA 74 E VAL 75 n 75 VAL 75 E ARG 76 n 76 ARG 76 E GLY 77 n 77 GLY 77 E ILE 78 n 78 ILE 78 E LEU 79 n 79 LEU 79 E ARG 80 n 80 ARG 80 E ASN 81 n 81 ASN 81 E ALA 82 n 82 ALA 82 E LYS 83 n 83 LYS 83 E LEU 84 n 84 LEU 84 E LYS 85 n 85 LYS 85 E PRO 86 n 86 PRO 86 E VAL 87 n 87 VAL 87 E TYR 88 n 88 TYR 88 E ASP 89 n 89 ASP 89 E SER 90 n 90 SER 90 E LEU 91 n 91 LEU 91 E ASP 92 n 92 ASP 92 E ALA 93 n 93 ALA 93 E VAL 94 n 94 VAL 94 E ARG 95 n 95 ARG 95 E ARG 96 n 96 ARG 96 E ALA 97 n 97 ALA 97 E ALA 98 n 98 ALA 98 E LEU 99 n 99 LEU 99 E ILE 100 n 100 ILE 100 E ASN 101 n 101 ASN 101 E MET 102 n 102 MET 102 E VAL 103 n 103 VAL 103 E PHE 104 n 104 PHE 104 E GLN 105 n 105 GLN 105 E MET 106 n 106 MET 106 E GLY 107 n 107 GLY 107 E GLU 108 n 108 GLU 108 E THR 109 n 109 THR 109 E GLY 110 n 110 GLY 110 E VAL 111 n 111 VAL 111 E ALA 112 n 112 ALA 112 E GLY 113 n 113 GLY 113 E PHE 114 n 114 PHE 114 E THR 115 n 115 THR 115 E ASN 116 n 116 ASN 116 E SER 117 n 117 SER 117 E LEU 118 n 118 LEU 118 E ARG 119 n 119 ARG 119 E MET 120 n 120 MET 120 E LEU 121 n 121 LEU 121 E GLN 122 n 122 GLN 122 E GLN 123 n 123 GLN 123 E LYS 124 n 124 LYS 124 E ARG 125 n 125 ARG 125 E TRP 126 n 126 TRP 126 E ASP 127 n 127 ASP 127 E GLU 128 n 128 GLU 128 E ALA 129 n 129 ALA 129 E ALA 130 n 130 ALA 130 E VAL 131 n 131 VAL 131 E ASN 132 n 132 ASN 132 E LEU 133 n 133 LEU 133 E ALA 134 n 134 ALA 134 E LYS 135 n 135 LYS 135 E SER 136 n 136 SER 136 E ARG 137 n 137 ARG 137 E TRP 138 n 138 TRP 138 E TYR 139 n 139 TYR 139 E ASN 140 n 140 ASN 140 E GLN 141 n 141 GLN 141 E THR 142 n 142 THR 142 E PRO 143 n 143 PRO 143 E ASN 144 n 144 ASN 144 E ARG 145 n 145 ARG 145 E ALA 146 n 146 ALA 146 E LYS 147 n 147 LYS 147 E ARG 148 n 148 ARG 148 E VAL 149 n 149 VAL 149 E ILE 150 n 150 ILE 150 E THR 151 n 151 THR 151 E THR 152 n 152 THR 152 E PHE 153 n 153 PHE 153 E ARG 154 n 154 ARG 154 E THR 155 n 155 THR 155 E GLY 156 n 156 GLY 156 E THR 157 n 157 THR 157 E TRP 158 n 158 TRP 158 E ASP 159 n 159 ASP 159 E ALA 160 n 160 ALA 160 E TYR 161 n 161 TYR 161 E LYS 162 n 162 LYS 162 E ASN 163 n 163 ASN 163 E n 164 164 E ALA 166 n 1 ALA 166 S FGA 167 n 2 FGA 167 S API 169 n 3 API 169 S DAL 170 n 4 DAL 170 S author_defined_assembly 2 dimeric S API 169 2,6-DIAMINOPIMELIC ACID B API 3 LYS 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 E O TYR 18 A O TYR 18 E N GLU 26 A N GLU 26 E O ILE 27 A O ILE 27 E N HIS 31 A N HIS 31 1 E CA ASN 163 A CA ASN 163 1 Y 1 E C ASN 163 A C ASN 163 1 Y 1 E O ASN 163 A O ASN 163 1 Y 1 E CB ASN 163 A CB ASN 163 1 Y 1 E CG ASN 163 A CG ASN 163 1 Y 1 E OD1 ASN 163 A OD1 ASN 163 1 Y 1 E ND2 ASN 163 A ND2 ASN 163 1 Y 1 E LEU 164 A LEU 164 1 Y 1 E A OE2 O5 GLU MUB 26 1 2.17 1 -3.79 0.50 120.30 116.51 E E E NE CZ NH2 ARG ARG ARG 14 14 14 N 1 6.32 0.90 118.30 124.62 E E E CB CG OD1 ASP ASP ASP 47 47 47 N 1 -7.68 0.90 118.30 110.62 E E E CB CG OD2 ASP ASP ASP 47 47 47 N 1 -6.23 0.90 118.30 112.07 E E E CB CG OD2 ASP ASP ASP 61 61 61 N 1 6.91 0.90 118.30 125.21 E E E CB CG OD1 ASP ASP ASP 72 72 72 N 1 10.79 1.40 123.60 134.39 E E E CD NE CZ ARG ARG ARG 76 76 76 N 1 7.44 0.50 120.30 127.74 E E E NE CZ NH1 ARG ARG ARG 76 76 76 N 1 -5.61 0.50 120.30 114.69 E E E NE CZ NH2 ARG ARG ARG 76 76 76 N 1 -3.53 0.50 120.30 116.77 E E E NE CZ NH1 ARG ARG ARG 80 80 80 N 1 4.59 0.50 120.30 124.89 E E E NE CZ NH2 ARG ARG ARG 80 80 80 N 1 -6.16 0.90 118.30 112.14 E E E CB CG OD1 ASP ASP ASP 92 92 92 N 1 7.31 0.90 118.30 125.61 E E E CB CG OD2 ASP ASP ASP 92 92 92 N 1 3.41 0.50 120.30 123.71 E E E NE CZ NH1 ARG ARG ARG 119 119 119 N 1 4.75 0.50 120.30 125.05 E E E NE CZ NH1 ARG ARG ARG 125 125 125 N 1 -6.57 0.90 118.30 111.73 E E E CB CG OD2 ASP ASP ASP 127 127 127 N 1 3.71 0.50 120.30 124.01 E E E NE CZ NH2 ARG ARG ARG 137 137 137 N 1 13.44 2.10 111.80 125.24 E E E CG CD NE ARG ARG ARG 145 145 145 A A A N 1 E E CD OE1 GLU GLU 11 11 0.068 0.011 1.252 1.320 N 1 E E CD OE2 GLU GLU 62 62 0.074 0.011 1.252 1.326 N 1 E E CD OE1 GLU GLU 64 64 0.069 0.011 1.252 1.321 N 1 E E CD OE2 GLU GLU 108 108 0.069 0.011 1.252 1.321 N 1 E E CD OE2 GLU GLU 128 128 0.075 0.011 1.252 1.327 N 1 E E S2 S2 BME BME 174 174 2.04 1_555 2_565 1 E ILE 29 -105.16 79.13 RESIDUES 162 - 164 IN WILD-TYPE AND ALL MUTANT LYSOZYMES ARE EXTREMELY MOBILE. THUS THE COORDINATES FOR THESE RESIDUES ARE VERY UNRELIABLE. THIS ENTRY DOES NOT INCLUDE RESIDUES 163 AND 164. MUTANT SPACE GROUP, P 21 21 2, IS NONISOMORPHOUS TO WILD TYPE. STARTING COORDINATES WERE BASED ON THE WILD-TYPE MODEL. 0.1680000 1.90 20.0 11889 1 0.0 1.90 20.0 140 1503 36 0 1327 0.014 2.7 refinement TNT A COVALENT ENZYME-SUBSTRATE INTERMEDIATE WITH SACCHARIDE DISTORTION IN A MUTANT T4 LYSOZYME 1 N N 2 N N 3 N N 4 N N 5 N N 5 N N E ILE 3 A ILE 3 HELX_P E GLU 11 A GLU 11 1 H1 9 E LEU 39 A LEU 39 HELX_P E ILE 50 A ILE 50 1 H2 12 E LYS 60 A LYS 60 HELX_P E ARG 80 A ARG 80 1 H3 21 E ALA 82 A ALA 82 HELX_P E SER 90 A SER 90 1 H4 9 E ALA 93 A ALA 93 HELX_P E MET 106 A MET 106 1 H5 14 E GLU 108 A GLU 108 HELX_P E GLY 113 A GLY 113 1 H6 6 E THR 115 A THR 115 HELX_P E GLN 123 A GLN 123 1 H7 9 E TRP 126 A TRP 126 HELX_P E ALA 134 A ALA 134 1 H8 9 E ARG 137 A ARG 137 HELX_P E GLN 141 A GLN 141 1 H9 5 E PRO 143 A PRO 143 HELX_P E THR 155 A THR 155 1 H10 13 covale 1.509 one E GLU 26 A OE2 GLU 26 1_555 A MUB 1 C C1 MUB 1_555 covale 1.343 both S ALA 166 B C ALA 1 1_555 S FGA 167 B N FGA 2 1_555 covale 1.351 one S ALA 166 B N ALA 1 1_555 A MUB 1 C C10 MUB 1_555 covale 1.300 both S FGA 167 B CD FGA 2 1_555 S API 169 B N API 3 1_555 covale 1.310 both S API 169 B C API 3 1_555 S DAL 170 B N DAL 4 1_555 covale 1.394 both A MUB 1 C O4 MUB 1_555 A NAG 2 C C1 NAG 1_555 HYDROLASE/HYDROLASE SUBSTRATE O-GLYCOSYL, HYDROLASE-HYDROLASE SUBSTRATE complex LYCV_BPT4 UNP 1 1 P00720 MNIFEMLRIDEGLRLKIYKDTEGYYTIGIGHLLTKSPSLNAAKSELDKAIGRNCNGVITKDEAEKLFNQDVDAAVRGILR NAKLKPVYDSLDAVRRCALINMVFQMGETGVAGFTNSLRMLQQKRWDEAAVNLAKSRWYNQTPNRAKRVITTFRTGTWDA YKNL 148L PDB 2 148L AEKA 1 164 148L 1 164 P00720 E 1 1 164 166 170 148L 166 170 148L S 2 1 4 1 THR conflict GLU 26 148L E P00720 UNP 26 26 1 CYS conflict THR 54 148L E P00720 UNP 54 54 1 CYS conflict ALA 97 148L E P00720 UNP 97 97 3 anti-parallel anti-parallel E ARG 14 A ARG 14 E LYS 19 A LYS 19 E TYR 25 A TYR 25 E GLY 28 A GLY 28 E HIS 31 A HIS 31 E THR 34 A THR 34 18 P 21 21 2