0.011362 0.000000 0.003952 0.000000 0.039714 0.000000 0.000000 0.000000 0.027351 0.00000 0.00000 0.00000 Economou, N.J. Weeks, S.D. Grasty, K.C. Loll, P.J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 109.18 90.00 88.010 25.180 38.710 C8 H9 N O4 183.161 (2S)-amino(3,5-dihydroxyphenyl)ethanoic acid L-peptide linking C9 H10 Cl N O3 215.634 n 3-chloro-D-tyrosine D-peptide linking 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 C5 H9 N O4 S 179.194 n CARBOXYMETHYLATED CYSTEINE L-peptide linking C3 H7 N O2 89.093 D-ALANINE D-peptide linking C6 H13 N O5 179.171 2-amino-2-deoxy-beta-D-glucopyranose beta-D-glucosamine; 2-amino-2-deoxy-beta-D-glucose; 2-amino-2-deoxy-D-glucose; 2-amino-2-deoxy-glucose; D-GLUCOSAMINE D-saccharide, beta linking C8 H9 N O3 167.162 (2R)-amino(4-hydroxyphenyl)ethanoic acid D-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 C6 H12 O6 180.156 alpha-D-mannopyranose alpha-D-mannose; D-mannose; mannose D-saccharide, alpha linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide 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 O4 197.188 n (betaR)-beta-hydroxy-L-Tyrosine L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C10 H20 O2 172.265 8-METHYLNONANOIC ACID non-polymer C4 H9 N O3 119.119 y THREONINE 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 N O Y 3 N C Y 4 N C Y 5 N C Y 6 N C N 7 N O Y 8 N C Y 9 N C N 10 S C N 11 N C N 12 N O N 13 N O N 14 N H N 15 N H N 16 N H N 17 N H N 18 N H N 19 N H N 20 N H N 21 N H N 22 N H N 23 N O Y 24 N C Y 25 N C Y 26 N C N 27 N CL Y 28 N C Y 29 N C Y 30 N C N 31 N C N 32 R C N 33 N C N 34 N O N 35 N N N 36 N O 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 N N 48 S C N 49 N C N 50 N O N 51 N C 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 N N 61 S C N 62 N C N 63 N O N 64 N C N 65 N C N 66 N C N 67 N N N 68 N C N 69 N N N 70 N N N 71 N O N 72 N H N 73 N H N 74 N H N 75 N H N 76 N H 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 H N 86 N H N 87 N N N 88 S C N 89 N C N 90 N O N 91 N C N 92 N C N 93 N O N 94 N N N 95 N O N 96 N H N 97 N H N 98 N H N 99 N H N 100 N H N 101 N H N 102 N H N 103 N H N 104 N N N 105 S C N 106 N C N 107 N O N 108 N C N 109 N C N 110 N O N 111 N O N 112 N O N 113 N H N 114 N H N 115 N H N 116 N H N 117 N H N 118 N H N 119 N H N 120 N N N 121 R C N 122 N C N 123 N S N 124 N C N 125 N C N 126 N O N 127 N O 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 H N 139 N H N 140 N N N 141 R C N 142 N C N 143 N C N 144 N O N 145 N O N 146 N H N 147 N H N 148 N H N 149 N H N 150 N H N 151 N H N 152 N H N 153 R C N 154 R C N 155 R C N 156 S C N 157 R C N 158 N C N 159 N N N 160 N O N 161 N O N 162 N O N 163 N O N 164 N O N 165 N H N 166 N H 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 H N 178 N N N 179 R C N 180 N C N 181 N O N 182 N O Y 183 N C Y 184 N C Y 185 N C Y 186 N C N 187 N O Y 188 N C Y 189 N C 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 H N 197 N H N 198 N H N 199 N N N 200 S C N 201 N C N 202 N O N 203 N C N 204 N C N 205 N C N 206 N O N 207 N N N 208 N O 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 H N 219 N N N 220 S C N 221 N C N 222 N O N 223 N C N 224 N C N 225 N C N 226 N O N 227 N O N 228 N O 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 N N 239 N C N 240 N C N 241 N O N 242 N O N 243 N H N 244 N H N 245 N H N 246 N H N 247 N H N 248 N N N 249 S C N 250 N C N 251 N O N 252 N C Y 253 N C Y 254 N N Y 255 N C Y 256 N C Y 257 N N N 258 N O 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 H N 266 N H N 267 N H N 268 N H N 269 N O N 270 N H N 271 N H N 272 N N N 273 S C N 274 N C N 275 N O N 276 S C N 277 N C N 278 N C N 279 N C N 280 N O N 281 N H N 282 N H N 283 N H N 284 N H N 285 N H N 286 N H N 287 N H N 288 N H N 289 N H N 290 N H N 291 N H N 292 N H N 293 N H N 294 N N N 295 S C N 296 N C N 297 N O N 298 N C N 299 N C N 300 N C N 301 N C N 302 N O N 303 N H N 304 N H N 305 N H N 306 N H 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 N N 317 S C N 318 N C N 319 N O N 320 N C N 321 N C N 322 N C N 323 N C N 324 N N N 325 N O N 326 N H N 327 N H N 328 N H N 329 N H N 330 N H N 331 N H N 332 N H N 333 N H 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 S C N 342 S C N 343 S C N 344 S C N 345 R C N 346 N C N 347 N O N 348 N O N 349 N O N 350 N O N 351 N O N 352 N O N 353 N H N 354 N H N 355 N H N 356 N H N 357 N H N 358 N H N 359 N H N 360 N H N 361 N H N 362 N H N 363 N H N 364 N H N 365 N N N 366 S C N 367 N C N 368 N O N 369 N C N 370 N C N 371 N S N 372 N C N 373 N O 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 R C N 386 R C N 387 R C N 388 S C N 389 R C N 390 N C N 391 N C N 392 N C N 393 N N N 394 N O N 395 N O N 396 N O N 397 N O N 398 N O 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 H N 412 N H N 413 N H N 414 N H N 415 N N N 416 S C N 417 N C N 418 N O N 419 R C N 420 N O Y 421 N C Y 422 N C Y 423 N C Y 424 N C Y 425 N C Y 426 N C N 427 N O N 428 N O N 429 N H N 430 N H N 431 N H N 432 N H N 433 N H 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 N N 441 S C N 442 N C N 443 N O N 444 N C Y 445 N C Y 446 N C Y 447 N C Y 448 N C Y 449 N C Y 450 N C N 451 N O 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 H N 460 N H N 461 N H N 462 N H N 463 N N N 464 S C N 465 N C N 466 N O N 467 N C N 468 N C N 469 N C N 470 N O N 471 N H N 472 N H N 473 N H 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 N N 481 S C N 482 N C N 483 N O N 484 N C N 485 N O N 486 N O N 487 N H N 488 N H N 489 N H N 490 N H N 491 N H N 492 N H N 493 N H N 494 N C N 495 N C N 496 N C N 497 N C N 498 N C N 499 N C N 500 N C N 501 N C N 502 N C N 503 N C N 504 N O N 505 N O N 506 N H N 507 N H N 508 N H N 509 N H N 510 N H N 511 N H 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 523 N H N 524 N H N 525 N H N 526 N N N 527 S C N 528 N C N 529 N O N 530 R C N 531 N O N 532 N C N 533 N O N 534 N H N 535 N H N 536 N H N 537 N H N 538 N H N 539 N H N 540 N H N 541 N H N 542 N H N 543 N N N 544 S C N 545 N C N 546 N O N 547 N C Y 548 N C Y 549 N C Y 550 N C Y 551 N C Y 552 N C Y 553 N C N 554 N O N 555 N O N 556 N H N 557 N H N 558 N H N 559 N H N 560 N H N 561 N H N 562 N H N 563 N H N 564 N H N 565 N H N 566 N H N 567 N N N 568 S C N 569 N C N 570 N O N 571 N C N 572 N C N 573 N C N 574 N O N 575 N H N 576 N H N 577 N H N 578 N H N 579 N H N 580 N H N 581 N H N 582 N H N 583 N H N 584 N H N 585 N H N 1 N sing N 2 N sing Y 3 N sing Y 4 N doub Y 5 N doub Y 6 N sing N 7 N sing Y 8 N doub Y 9 N sing N 10 N sing N 11 N sing N 12 N doub N 13 N sing N 14 N sing 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 Y 24 N sing Y 25 N doub Y 26 N doub N 27 N sing Y 28 N sing Y 29 N sing Y 30 N doub N 31 N sing N 32 N sing N 33 N sing N 34 N sing N 35 N doub 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 doub N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N sing N 62 N sing N 63 N sing N 64 N sing N 65 N doub 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 sing N 76 N sing N 77 N sing N 78 N sing N 79 N doub 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 sing N 90 N sing N 91 N doub N 92 N sing N 93 N sing N 94 N sing N 95 N sing N 96 N doub 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 doub N 108 N sing N 109 N sing N 110 N sing N 111 N sing N 112 N doub 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 sing N 128 N sing N 129 N doub 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 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 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 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 sing N 174 N sing N 175 N sing N 176 N sing N 177 N sing N 178 N doub N 179 N sing N 180 N sing Y 181 N doub Y 182 N sing Y 183 N sing N 184 N sing Y 185 N doub N 186 N sing N 187 N sing Y 188 N sing N 189 N sing Y 190 N doub 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 doub 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 doub N 208 N sing N 209 N sing N 210 N sing N 211 N sing N 212 N sing N 213 N sing N 214 N sing N 215 N sing N 216 N sing N 217 N sing N 218 N doub 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 doub 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 doub 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 doub N 246 N sing N 247 N sing N 248 N sing N 249 N sing Y 250 N sing Y 251 N doub Y 252 N doub N 253 N sing Y 254 N sing N 255 N sing Y 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 doub 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 doub 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 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 doub N 359 N sing N 360 N sing N 361 N sing N 362 N sing N 363 N sing N 364 N sing N 365 N sing N 366 N sing N 367 N sing N 368 N sing N 369 N sing N 370 N sing N 371 N sing N 372 N sing N 373 N 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 sing N 387 N sing N 388 N sing N 389 N sing N 390 N sing N 391 N sing N 392 N doub N 393 N sing N 394 N sing N 395 N sing N 396 N sing N 397 N sing N 398 N sing N 399 N sing N 400 N sing N 401 N sing N 402 N sing N 403 N sing N 404 N doub N 405 N sing N 406 N sing N 407 N sing Y 408 N sing Y 409 N doub Y 410 N doub Y 411 N sing Y 412 N sing Y 413 N doub N 414 N sing N 415 N sing N 416 N sing N 417 N sing N 418 N sing N 419 N sing N 420 N sing N 421 N sing N 422 N sing N 423 N sing N 424 N sing N 425 N sing N 426 N sing N 427 N sing N 428 N sing N 429 N sing N 430 N sing N 431 N sing N 432 N doub N 433 N sing N 434 N sing N 435 N sing N 436 N sing Y 437 N doub Y 438 N sing Y 439 N sing N 440 N sing Y 441 N doub N 442 N sing Y 443 N doub N 444 N sing Y 445 N sing N 446 N sing N 447 N sing N 448 N sing N 449 N sing N 450 N sing N 451 N sing N 452 N sing N 453 N sing N 454 N sing N 455 N doub N 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 N 470 N sing N 471 N sing N 472 N doub N 473 N sing N 474 N sing N 475 N sing N 476 N sing N 477 N sing N 478 N sing N 479 N sing N 480 N sing N 481 N sing N 482 N doub N 483 N sing N 484 N sing N 485 N sing N 486 N sing 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 sing 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 N 507 N sing N 508 N sing N 509 N sing N 510 N sing N 511 N sing N 512 N sing N 513 N sing N 514 N sing N 515 N sing N 516 N doub N 517 N sing N 518 N sing N 519 N sing N 520 N sing N 521 N sing N 522 N sing N 523 N sing N 524 N sing N 525 N sing N 526 N sing N 527 N sing N 528 N sing N 529 N sing N 530 N sing N 531 N sing N 532 N doub N 533 N sing N 534 N sing N 535 N sing N 536 N sing Y 537 N doub Y 538 N sing Y 539 N sing N 540 N sing Y 541 N doub N 542 N sing Y 543 N doub N 544 N sing Y 545 N sing N 546 N sing N 547 N sing N 548 N sing N 549 N sing N 550 N sing N 551 N sing N 552 N sing N 553 N sing N 554 N sing N 555 N sing N 556 N doub N 557 N sing N 558 N sing N 559 N sing N 560 N sing N 561 N sing N 562 N sing N 563 N sing N 564 N sing N 565 N sing N 566 N sing N 567 N sing DK Acta Crystallogr.,Sect.D ABCRE6 0766 0907-4449 69 520 533 10.1107/S0907444912050469 23519660 Structure of the complex between teicoplanin and a bacterial cell-wall peptide: use of a carrier-protein approach. 2013 10.2210/pdb3vfk/pdb pdb_00003vfk 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 93 1 CCD 2009-04-10 ADSC QUANTUM 315 Cryogenically-cooled single crystal Si(111)side bounce monochromator SINGLE WAVELENGTH M x-ray 1 0.9792 1.0 24-ID-E APS 0.9792 SYNCHROTRON APS BEAMLINE 24-ID-E 8952.293 ubiquitin, C-terminal fused by Cys-Lys-D-Ala-D-Ala 1 man polymer 1172.539 MonodeChloro- Teicoplanin A2-2 1 nat polymer 179.171 2-amino-2-deoxy-beta-D-glucopyranose 1 man non-polymer 172.265 8-METHYLNONANOIC ACID 1 syn non-polymer 221.208 2-acetamido-2-deoxy-beta-D-glucopyranose 1 man non-polymer 180.156 alpha-D-mannopyranose 1 man non-polymer 18.015 water 10 nat water Ubiquitin no yes MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG(CCS) K(DAL)(DAL) MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGCKAA A polypeptide(L) no yes (GHP)(3MY)(3FG)(GHP)(GHP)(OMX)(3FG) GYXGGYX G 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 human four C-terminal amino acids added non-recombinantly with native chemical ligation sample UBC 9606 Homo sapiens 562 Escherichia coli sample 1867 Actinoplanes teichomyceticus 2 2.00 38.42 VAPOR DIFFUSION, HANGING DROP 4.6 0.1 M magnesium chloride, 0.1 M sodium acetate 4.6, 18% PEG 1500, VAPOR DIFFUSION, HANGING DROP, temperature 291K 291 chem_comp entity entity_poly 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 entity_poly chem_comp_atom chem_comp_bond struct_conn repository Initial release Carbohydrate remediation repository Remediation Structure summary Derived calculations Database references Data collection Derived calculations Polymer sequence Structure summary Data collection Database references Refinement description Structure summary Polymer sequence Data collection Derived calculations 1 0 2013-01-09 1 1 2013-03-27 1 2 2013-04-03 1 3 2013-06-19 2 0 2020-07-29 2 1 2023-09-13 3 0 2023-09-27 3 1 2023-12-06 _chem_comp.name _chem_comp.type _entity.pdbx_description _entity_poly.pdbx_seq_one_letter_code_can _pdbx_entity_nonpoly.name _struct_conn.pdbx_dist_value _struct_conn.pdbx_leaving_atom_flag _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_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 _entity_poly.type _chem_comp_atom.atom_id _chem_comp_bond.atom_id_2 _struct_conn.pdbx_leaving_atom_flag DGlcpNb b-D-glucopyranosamine b-D-GlcpN GlcN DManpa a-D-mannopyranose a-D-Manp Man DGlcpNAcb N-acetyl-b-D-glucopyranosamine b-D-GlcpNAc GlcNAc Native MBP structure used for molecular replacement same crystallographic strategy: vancomycin bound to a T4 lysozyme-substrate fusion same crystallographic strategy: dalbavancin bound to the same ubiquitin fusion same crystallographic strategy: ristocetin bound to a MBP-substrate fusion The structure of monodechloro-teicoplanin in complex with its ligand, using MBP as a ligand RCSB Y RCSB 2012-01-09 REL REL GCS 2-amino-2-deoxy-beta-D-glucopyranose T55 8-METHYLNONANOIC ACID NAG 2-acetamido-2-deoxy-beta-D-glucopyranose MAN alpha-D-mannopyranose HOH water AUTHORS STATED THE FOLLOWING: THE STARTING MATERIAL HAD TEICOPLANIN A2-2 THAT CONTAINED TWO CHLORINE ATOMS. THE ACTUAL CRYSTALS CONTAINED BOTH CHLORINE ATOMS BEFORE THEY WERE EXPOSED TO X-RAYS. ONE CHLORINE WAS REMOVED FROM TEICOPLANIN BY X-IRRADIATION DAMAGE EARLY IN THE DIFFRACTION EXPERIMENT TEICOPLANIN IS A FAMILY OF TETRACYCLIC GLYCOPEPTIDE ANTIBIOTICS. THE SCAFFOLD IS A HEPTAPEPTIDE FURTHER GLYCOSYLATED BY THREE MONO SACCHARIDES: MANNOSE, N-ACETYLGLUCOSAMINE AND BETA-D-GLUCOSAMINE AND ONLY DIFFER BY THE SIDE CHAIN ATTACHED TO THE LATTER. TEICOPLANIN A2-2 HAS 8-METHYLNONANOIC ACID ATTACHED TO GLUCOSAMINE. HERE, TEICOPLANIN A2-2 WAS UNDER RADIATION DAMAGE, WHICH CAUSES THE LOSS OF ONE CHLORINE ATOM. C-TERMINAL FUSED BY MODIFIED CYS-LYS-D-ALA-D-ALA 1UBQ PDB entry 1UBQ PDB experimental model Antibiotic MonodeChloro- Teicoplanin A2-2 Glycopeptide GCS 8 3 GCS GCS 8 G T55 9 4 T55 T55 9 G NAG 10 5 NAG NAG 10 G MAN 11 6 MAN MAN 11 G HOH 1 7 HOH HOH 201 A HOH 2 7 HOH HOH 202 A HOH 3 7 HOH HOH 203 A HOH 4 7 HOH HOH 204 A HOH 5 7 HOH HOH 205 A HOH 6 7 HOH HOH 206 A HOH 7 7 HOH HOH 207 A HOH 8 7 HOH HOH 208 A HOH 9 7 HOH HOH 209 A HOH 10 7 HOH HOH 210 A MET 1 n 1 MET 1 A GLN 2 n 2 GLN 2 A ILE 3 n 3 ILE 3 A PHE 4 n 4 PHE 4 A VAL 5 n 5 VAL 5 A LYS 6 n 6 LYS 6 A THR 7 n 7 THR 7 A LEU 8 n 8 LEU 8 A THR 9 n 9 THR 9 A GLY 10 n 10 GLY 10 A LYS 11 n 11 LYS 11 A THR 12 n 12 THR 12 A ILE 13 n 13 ILE 13 A THR 14 n 14 THR 14 A LEU 15 n 15 LEU 15 A GLU 16 n 16 GLU 16 A VAL 17 n 17 VAL 17 A GLU 18 n 18 GLU 18 A PRO 19 n 19 PRO 19 A SER 20 n 20 SER 20 A ASP 21 n 21 ASP 21 A THR 22 n 22 THR 22 A ILE 23 n 23 ILE 23 A GLU 24 n 24 GLU 24 A ASN 25 n 25 ASN 25 A VAL 26 n 26 VAL 26 A LYS 27 n 27 LYS 27 A ALA 28 n 28 ALA 28 A LYS 29 n 29 LYS 29 A ILE 30 n 30 ILE 30 A GLN 31 n 31 GLN 31 A ASP 32 n 32 ASP 32 A LYS 33 n 33 LYS 33 A GLU 34 n 34 GLU 34 A GLY 35 n 35 GLY 35 A ILE 36 n 36 ILE 36 A PRO 37 n 37 PRO 37 A PRO 38 n 38 PRO 38 A ASP 39 n 39 ASP 39 A GLN 40 n 40 GLN 40 A GLN 41 n 41 GLN 41 A ARG 42 n 42 ARG 42 A LEU 43 n 43 LEU 43 A ILE 44 n 44 ILE 44 A PHE 45 n 45 PHE 45 A ALA 46 n 46 ALA 46 A GLY 47 n 47 GLY 47 A LYS 48 n 48 LYS 48 A GLN 49 n 49 GLN 49 A LEU 50 n 50 LEU 50 A GLU 51 n 51 GLU 51 A ASP 52 n 52 ASP 52 A GLY 53 n 53 GLY 53 A ARG 54 n 54 ARG 54 A THR 55 n 55 THR 55 A LEU 56 n 56 LEU 56 A SER 57 n 57 SER 57 A ASP 58 n 58 ASP 58 A TYR 59 n 59 TYR 59 A ASN 60 n 60 ASN 60 A ILE 61 n 61 ILE 61 A GLN 62 n 62 GLN 62 A LYS 63 n 63 LYS 63 A GLU 64 n 64 GLU 64 A SER 65 n 65 SER 65 A THR 66 n 66 THR 66 A LEU 67 n 67 LEU 67 A HIS 68 n 68 HIS 68 A LEU 69 n 69 LEU 69 A VAL 70 n 70 VAL 70 A LEU 71 n 71 LEU 71 A ARG 72 n 72 ARG 72 A LEU 73 n 73 LEU 73 A ARG 74 n 74 ARG 74 A GLY 75 n 75 GLY 75 A CCS 76 n 76 CCS 76 A LYS 77 n 77 LYS 77 A DAL 78 n 78 DAL 78 A DAL 79 n 79 DAL 79 A NTR 1 n 1 GHP 1 G 3MY 2 n 2 3MY 2 G 3FG 3 n 3 3FG 3 G GHP 4 n 4 GHP 4 G GHP 5 n 5 GHP 5 G OMX 6 n 6 OMX 6 G 3FG 7 n 7 3FG 7 G author_defined_assembly 2 dimeric 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 O LEU 15 A O LEU 15 A N ILE 3 A N ILE 3 A N PHE 4 A N PHE 4 A O LEU 67 A O LEU 67 A O HIS 68 A O HIS 68 A N ILE 44 A N ILE 44 A N PHE 45 A N PHE 45 A O LYS 48 A O LYS 48 1 A ARG 54 -175.15 127.86 1 G 3FG 3 -143.02 -67.54 8.4159 0.0000 -18.7315 -20.2601 -0.0000 11.8442 0.3057 0.2776 0.2789 2.800 19.294 93 2084 4.46 99.95 0.45 1 2.04 MOLECULAR REPLACEMENT 34.93 0.00 0.30 PDB entry 1UBQ ML FLAT BULK SOLVENT MODEL 77.331 0.424 2.800 19.294 10 768 47 0 711 0.005 777 0.847 1061 12.765 318 0.037 122 0.004 132 2.8 19.294 3VFK 2084 -3 1 99.2 phasing MOLREP refinement PHENIX (phenix.refine: 1.6.2_432) data reduction XDS data scaling XSCALE The structure of monodechloro-teicoplanin in complex with its ligand, using ubiquitin as a ligand carrier 1 N N 2 N N 3 N N 4 N N 5 N N 6 N N 7 N N A THR 22 A THR 22 HELX_P A GLU 34 A GLU 34 1 1 13 A PRO 37 A PRO 37 HELX_P A ASP 39 A ASP 39 5 2 3 A LEU 56 A LEU 56 HELX_P A ASN 60 A ASN 60 5 3 5 covale 1.323 both A GLY 75 A C GLY 75 1_555 A CCS 76 A N CCS 76 1_555 covale 1.332 both A CCS 76 A C CCS 76 1_555 A LYS 77 A N LYS 77 1_555 covale 1.326 both A LYS 77 A C LYS 77 1_555 A DAL 78 A N DAL 78 1_555 covale 1.326 both A DAL 78 A C DAL 78 1_555 A DAL 79 A N DAL 79 1_555 covale 1.330 both G GHP 1 B C GHP 1 1_555 G 3MY 2 B N 3MY 2 1_555 covale 1.362 none G GHP 1 B C5 GHP 1 1_555 G 3FG 3 B OD1 3FG 3 1_555 covale 1.331 both G 3MY 2 B C 3MY 2 1_555 G 3FG 3 B N 3FG 3 1_555 covale 1.383 one G 3MY 2 B OBD 3MY 2 1_555 G GHP 4 B C3 GHP 4 1_555 covale 1.330 one G 3FG 3 B C 3FG 3 1_555 G GHP 4 B N GHP 4 1_555 covale 1.331 both G GHP 4 B C GHP 4 1_555 G GHP 5 B N GHP 5 1_555 covale 1.384 none G GHP 4 B C5 GHP 4 1_555 G OMX 6 B OH OMX 6 1_555 covale 1.383 one G GHP 4 B O4 GHP 4 1_555 G GCS 8 C C1 GCS 1_555 covale 1.328 both G GHP 5 B C GHP 5 1_555 G OMX 6 B N OMX 6 1_555 covale 1.399 one G GHP 5 B C3 GHP 5 1_555 G 3FG 7 B CG1 3FG 7 1_555 covale 1.328 both G OMX 6 B C OMX 6 1_555 G 3FG 7 B N 3FG 7 1_555 covale 1.384 one G OMX 6 B OC OMX 6 1_555 G NAG 10 E C1 NAG 1_555 covale 1.422 one G 3FG 7 B OD1 3FG 7 1_555 G MAN 11 F C1 MAN 1_555 covale 1.462 both G GCS 8 C N2 GCS 1_555 G T55 9 D C T55 1_555 SUGAR BINDING PROTEIN/ANTIBIOTIC teicoplanin, acetylation of cyteine with iodoacetate modification, SUGAR BINDING PROTEIN-ANTIBIOTIC complex G GHP 5 B GHP 5 1 G OMX 6 B OMX 6 1.18 UBC_HUMAN UNP 1 1 P0CG48 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 3VFK PDB 2 3VFK 1 75 3VFK 1 75 P0CG48 A 1 1 75 1 7 3VFK 1 7 3VFK G 2 1 7 1 SEE REMARK 999 CCS 76 3VFK A P0CG48 UNP 76 1 SEE REMARK 999 LYS 77 3VFK A P0CG48 UNP 77 1 SEE REMARK 999 DAL 78 3VFK A P0CG48 UNP 78 1 SEE REMARK 999 DAL 79 3VFK A P0CG48 UNP 79 5 anti-parallel parallel anti-parallel anti-parallel A ILE 13 A ILE 13 A GLU 16 A GLU 16 A GLN 2 A GLN 2 A THR 7 A THR 7 A SER 65 A SER 65 A LEU 71 A LEU 71 A GLN 41 A GLN 41 A PHE 45 A PHE 45 A LYS 48 A LYS 48 A GLN 49 A GLN 49 5 C 1 2 1