0.023925 0.000000 0.000000 0.000000 0.009354 0.000000 0.000000 0.000000 0.009086 0.00000 0.00000 0.00000 Giabbai, B. Sidobre, S. Crispin, M.M.D. Sanchez Ruiz, Y. Bachi, A. Kronenberg, M. Wilson, I.A. Degano, M. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 90.00 90.00 41.798 106.909 110.060 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 C6 H12 O5 164.156 alpha-L-fucopyranose alpha-L-fucose; 6-deoxy-alpha-L-galactopyranose; L-fucose; fucose L-saccharide, alpha 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 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 C45 H90 N O8 P 804.172 7-[(DODECANOYLOXY)METHYL]-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-3,5,8-TRIOXA-4-PHOSPHADOTRIACONTAN-1-AMINIUM 4-OXIDE non-polymer 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 N N 15 S C N 16 N C N 17 N O N 18 N C N 19 N C N 20 N C N 21 N N N 22 N C N 23 N N N 24 N N N 25 N O N 26 N H N 27 N H N 28 N H N 29 N H N 30 N H N 31 N H N 32 N H N 33 N H N 34 N H N 35 N H N 36 N 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 O N 48 N N N 49 N O N 50 N H N 51 N H N 52 N H N 53 N H N 54 N H N 55 N H N 56 N H N 57 N H N 58 N N N 59 S C N 60 N C N 61 N O N 62 N C N 63 N C N 64 N O N 65 N O N 66 N O N 67 N H N 68 N H N 69 N H N 70 N H N 71 N H N 72 N H N 73 N H N 74 N N N 75 R C N 76 N C N 77 N O N 78 N C N 79 N S N 80 N O 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 R C N 89 S C N 90 R C N 91 S C N 92 S C N 93 N C N 94 N O N 95 N O N 96 N O N 97 N O N 98 N O N 99 N H N 100 N H N 101 N H N 102 N H N 103 N H N 104 N H N 105 N H N 106 N H N 107 N H N 108 N H N 109 N H N 110 N H N 111 N N N 112 S C N 113 N C N 114 N O N 115 N C N 116 N C N 117 N C N 118 N O N 119 N N 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 H N 129 N H N 130 N H N 131 N N N 132 S C N 133 N C N 134 N O N 135 N C N 136 N C N 137 N C N 138 N O N 139 N O N 140 N O N 141 N H N 142 N H N 143 N H N 144 N H N 145 N H N 146 N H N 147 N H N 148 N H N 149 N H N 150 N N N 151 N C N 152 N C N 153 N O N 154 N O N 155 N H N 156 N H N 157 N H N 158 N H N 159 N H N 160 N C N 161 N O N 162 N C N 163 N O N 164 N C N 165 N O 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 N N 175 S C N 176 N C N 177 N O N 178 N C Y 179 N C Y 180 N N Y 181 N C Y 182 N C Y 183 N N N 184 N O N 185 N H N 186 N H N 187 N H N 188 N H N 189 N H N 190 N H N 191 N H N 192 N H N 193 N H N 194 N H N 195 N O N 196 N H N 197 N H N 198 N N N 199 S C N 200 N C N 201 N O N 202 S C N 203 N C N 204 N C N 205 N C N 206 N O N 207 N H N 208 N H N 209 N H N 210 N H N 211 N H N 212 N H N 213 N H N 214 N H N 215 N H N 216 N H N 217 N H N 218 N H N 219 N H N 220 N N N 221 S C N 222 N C N 223 N O N 224 N C N 225 N C N 226 N C N 227 N C 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 H N 239 N H N 240 N H N 241 N H N 242 N N N 243 S C N 244 N C N 245 N O N 246 N C N 247 N C N 248 N C N 249 N C N 250 N N N 251 N O N 252 N H N 253 N H N 254 N H N 255 N H N 256 N H N 257 N H N 258 N H N 259 N H N 260 N H N 261 N H N 262 N H N 263 N H N 264 N H N 265 N H N 266 N H N 267 S C N 268 S C N 269 S C N 270 S C N 271 R C N 272 N C N 273 N O N 274 N O N 275 N O N 276 N O N 277 N O N 278 N O N 279 N H N 280 N H N 281 N H N 282 N H N 283 N H N 284 N H N 285 N H N 286 N H N 287 N H N 288 N H N 289 N H N 290 N H N 291 N N N 292 S C N 293 N C N 294 N O N 295 N C N 296 N C N 297 N S N 298 N C N 299 N O N 300 N H N 301 N H N 302 N H N 303 N H N 304 N H N 305 N H N 306 N H N 307 N H N 308 N H N 309 N H N 310 N H N 311 R C N 312 R C N 313 R C N 314 S C N 315 R C N 316 N C N 317 N C N 318 N C N 319 N N N 320 N O N 321 N O N 322 N O N 323 N O N 324 N O 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 N O N 342 N P N 343 N O N 344 N O N 345 N C N 346 N C N 347 N N N 348 N C N 349 N C N 350 N C N 351 N O N 352 N C N 353 R C N 354 N C N 355 N O N 356 N C N 357 N O N 358 N C N 359 N C N 360 N C N 361 N C N 362 N C N 363 N C N 364 N C N 365 N C N 366 N C N 367 N C N 368 N C N 369 N O N 370 N C N 371 N O N 372 N C N 373 N C N 374 N C N 375 N C N 376 N C N 377 N C N 378 N C N 379 N C N 380 N C N 381 N C N 382 N C N 383 N C N 384 N C N 385 N C N 386 N C N 387 N C N 388 N C N 389 N C N 390 N C N 391 N C N 392 N C N 393 N C N 394 N C N 395 N C N 396 N H N 397 N H N 398 N H N 399 N H N 400 N H N 401 N H N 402 N H N 403 N H N 404 N H N 405 N H N 406 N 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 H N 416 N H N 417 N H N 418 N H N 419 N H N 420 N H N 421 N H N 422 N H N 423 N H N 424 N H N 425 N H N 426 N H N 427 N H N 428 N H 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 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 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 H N 464 N H 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 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 H 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 N N 510 S C N 511 N C N 512 N O N 513 N C N 514 N C N 515 N C N 516 N O 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 N C N 531 N O N 532 N O N 533 N H 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 N N 541 S C N 542 N C N 543 N O N 544 R C N 545 N O N 546 N C N 547 N O N 548 N H N 549 N H N 550 N H N 551 N H N 552 N H N 553 N H N 554 N H N 555 N H N 556 N H N 557 N N N 558 S C N 559 N C N 560 N O N 561 N C Y 562 N C Y 563 N C Y 564 N C Y 565 N N Y 566 N C Y 567 N C Y 568 N C Y 569 N C Y 570 N C N 571 N O N 572 N H N 573 N H N 574 N H 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 N N 585 S C N 586 N C N 587 N O N 588 N C Y 589 N C Y 590 N C Y 591 N C Y 592 N C Y 593 N C Y 594 N C N 595 N O N 596 N O N 597 N H N 598 N H N 599 N H N 600 N H N 601 N H N 602 N H N 603 N H N 604 N H N 605 N H N 606 N H N 607 N H N 608 N N N 609 S C N 610 N C N 611 N O N 612 N C N 613 N C N 614 N C N 615 N O N 616 N H N 617 N H N 618 N H N 619 N H N 620 N H N 621 N H N 622 N H N 623 N H N 624 N H N 625 N H N 626 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 sing N 15 N sing N 16 N sing N 17 N sing N 18 N sing N 19 N doub 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 sing N 32 N sing N 33 N doub N 34 N sing N 35 N sing N 36 N sing N 37 N sing N 38 N sing N 39 N sing N 40 N sing N 41 N sing N 42 N sing N 43 N sing N 44 N sing N 45 N doub N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N doub 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 doub N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N doub 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 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 sing N 88 N sing N 89 N sing N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N 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 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 doub 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 sing N 130 N sing N 131 N doub N 132 N sing 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 doub N 140 N sing N 141 N sing N 142 N sing N 143 N sing N 144 N sing N 145 N sing N 146 N sing N 147 N sing N 148 N sing N 149 N doub 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 doub N 172 N sing N 173 N sing N 174 N sing N 175 N sing Y 176 N sing Y 177 N doub Y 178 N doub N 179 N sing Y 180 N sing N 181 N sing Y 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 sing N 192 N sing N 193 N sing N 194 N doub 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 sing N 205 N sing N 206 N sing N 207 N sing N 208 N sing N 209 N sing N 210 N sing N 211 N sing N 212 N sing N 213 N sing N 214 N sing N 215 N doub 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 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 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 sing N 266 N sing N 267 N sing N 268 N sing N 269 N sing N 270 N sing N 271 N sing N 272 N sing N 273 N sing N 274 N sing N 275 N sing N 276 N sing N 277 N sing N 278 N sing N 279 N sing N 280 N sing N 281 N sing N 282 N sing N 283 N sing N 284 N doub 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 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 sing N 318 N doub N 319 N sing N 320 N sing N 321 N sing N 322 N sing N 323 N sing N 324 N sing N 325 N sing N 326 N sing N 327 N doub N 328 N sing N 329 N sing N 330 N sing N 331 N sing N 332 N sing N 333 N sing N 334 N sing N 335 N sing N 336 N sing N 337 N sing N 338 N sing N 339 N sing N 340 N sing N 341 N sing N 342 N sing N 343 N sing N 344 N 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 doub 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 sing N 393 N sing N 394 N sing N 395 N sing N 396 N sing N 397 N doub 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 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 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 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 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 sing 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 sing N 473 N sing N 474 N sing N 475 N sing N 476 N sing N 477 N doub N 478 N sing N 479 N sing N 480 N sing N 481 N sing Y 482 N doub Y 483 N sing Y 484 N sing N 485 N sing Y 486 N doub N 487 N sing Y 488 N doub N 489 N sing Y 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 doub 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 sing N 517 N doub 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 doub N 531 N sing N 532 N sing N 533 N sing N 534 N sing N 535 N sing N 536 N sing N 537 N sing N 538 N sing N 539 N sing N 540 N sing N 541 N sing N 542 N sing N 543 N sing N 544 N sing N 545 N sing N 546 N doub N 547 N sing N 548 N sing N 549 N sing N 550 N sing Y 551 N doub Y 552 N sing Y 553 N sing N 554 N sing Y 555 N doub Y 556 N sing Y 557 N sing N 558 N sing Y 559 N sing Y 560 N doub N 561 N sing Y 562 N doub N 563 N sing Y 564 N sing N 565 N sing N 566 N sing N 567 N sing N 568 N sing N 569 N sing N 570 N sing N 571 N sing N 572 N sing N 573 N sing N 574 N doub N 575 N sing N 576 N sing N 577 N sing N 578 N sing Y 579 N doub Y 580 N sing Y 581 N sing N 582 N sing Y 583 N doub N 584 N sing Y 585 N doub N 586 N sing Y 587 N sing N 588 N sing N 589 N sing N 590 N sing N 591 N sing N 592 N sing N 593 N sing N 594 N sing N 595 N sing N 596 N sing N 597 N sing N 598 N doub N 599 N sing N 600 N sing N 601 N sing N 602 N sing N 603 N sing N 604 N sing N 605 N sing N 606 N sing N 607 N sing N 608 N sing N 609 N sing US J.Immunol. JOIMA3 0952 0022-1767 175 977 984 16002697 Crystal structure of mouse CD1d bound to the self ligand phosphatidylcholine: a molecular basis for NKT cell activation 2005 US Science SCIEAS 0038 0036-8075 277 339 345 Crystal structure of mouse CD1: An MHC-like fold with a large hydrophobic binding groove 1997 10.2210/pdb1zhn/pdb pdb_00001zhn NAG C 1 HAS WRONG CHIRALITY AT ATOM C1 MAN D 3 HAS WRONG CHIRALITY AT ATOM C1 100 1 IMAGE PLATE 1998-05-22 MARRESEARCH Mirrors SINGLE WAVELENGTH M x-ray 1 1.0000 1.0 BL7-1 SSRL 1.0000 SYNCHROTRON SSRL BEAMLINE BL7-1 Self phospholipid copurified with protein 31131.100 CD1d1 antigen 1 man polymer 11704.359 beta-2-microglobulin 1 man polymer 367.349 alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose 1 man branched 1056.964 alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose 1 man branched 221.208 2-acetamido-2-deoxy-beta-D-glucopyranose 1 man non-polymer 804.172 7-[(DODECANOYLOXY)METHYL]-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-3,5,8-TRIOXA-4-PHOSPHADOTRIACONTAN-1-AMINIUM 4-OXIDE 1 syn non-polymer 92.094 GLYCEROL 1 syn non-polymer 18.015 water 50 nat water T-cell surface glycoprotein CD1d1 no no NYTFRCLQMSSFANRSWSRTDSVVWLGDLQTHRWSNDSATISFTKPWSQGKLSNQQWEKLQHMFQVYRVSFTRDIQELVK MMSPKEDYPIEIQLSAGCEMYPGNASESFLHVAFQGKYVVRFWGTSWQTVPGAPSWLDLPIKVLNADQGTSATVQMLLND TCPLFVRGLLEAGKSDLEKQEKPVAWLSSVPSSAHGHRQLVCHVSGFYPKPVWVMWMRGDQEQQGTHRGDFLPNADETWY LQATLDVEAGEEAGLACRVKHSSLGGQDIILYW NYTFRCLQMSSFANRSWSRTDSVVWLGDLQTHRWSNDSATISFTKPWSQGKLSNQQWEKLQHMFQVYRVSFTRDIQELVK MMSPKEDYPIEIQLSAGCEMYPGNASESFLHVAFQGKYVVRFWGTSWQTVPGAPSWLDLPIKVLNADQGTSATVQMLLND TCPLFVRGLLEAGKSDLEKQEKPVAWLSSVPSSAHGHRQLVCHVSGFYPKPVWVMWMRGDQEQQGTHRGDFLPNADETWY LQATLDVEAGEEAGLACRVKHSSLGGQDIILYW A polypeptide(L) no no IQKTPQIQVYSRHPPENGKPNILNCYVTQFHPPHIEIQMLKNGKKIPKVEMSDMSFSKDWSFYILAHTEFTPTETDTYAC RVKHDSMAEPKTVYWDRDM IQKTPQIQVYSRHPPENGKPNILNCYVTQFHPPHIEIQMLKNGKKIPKVEMSDMSFSKDWSFYILAHTEFTPTETDTYAC RVKHDSMAEPKTVYWDRDM B polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n house mouse Mus fruit fly Drosophila sample 10090 Mus musculus S2 cells 7227 Drosophila melanogaster pRmHa-3 house mouse Mus fruit fly Drosophila sample 10090 Mus musculus S2 cells 7227 Drosophila melanogaster pRmHa-3 1 2.9 57.7 VAPOR DIFFUSION, HANGING DROP 7.4 100 mM Tris, 200 mM NH4(SO4)2, 25% PEG 4000, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 293K 293 atom_site chem_comp database_PDB_caveat 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_chiral struct_asym struct_conn struct_site struct_site_gen chem_comp chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model repository Initial release Carbohydrate remediation repository Remediation Version format compliance Non-polymer description Version format compliance Advisory Atomic model Data collection Derived calculations Structure summary Data collection Database references Refinement description Structure summary 1 0 2005-07-19 1 1 2008-04-30 1 2 2011-07-13 2 0 2020-07-29 2 1 2023-08-23 _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 _entity.formula_weight _entity.pdbx_description _entity.pdbx_number_of_molecules _entity.type _pdbx_struct_assembly_gen.asym_id_list _pdbx_validate_chiral.auth_asym_id _pdbx_validate_chiral.auth_seq_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_leaving_atom_flag _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 C NAG 1 n C NAG 1 C FUC 13 n C FUC 2 E NAG 3 n D NAG 1 E NAG 31 n D NAG 2 E MAN 32 n D MAN 3 E MAN 33 n D MAN 4 E MAN 34 n D MAN 5 E FUC 35 n D FUC 6 LFucpa a-L-fucopyranose a-L-Fucp Fuc DManpa a-D-mannopyranose a-D-Manp Man DGlcpNAcb N-acetyl-b-D-glucopyranosamine b-D-GlcpNAc GlcNAc Mouse CD1d with no ligand Human CD1b bound to PI Human CD1b bound to GM1 Human CD1a bound to sulfatide self ligand N RCSB Y RCSB 2005-04-26 REL REL oligosaccharide oligosaccharide LFucpa1-6DGlcpNAcb1- 3 GMML 1.0 Glycam Condensed Sequence WURCS=2.0/2,2,1/[a2122h-1b_1-5_2*NCC/3=O][a1221m-1a_1-5]/1-2/a6-b1 3 PDB2Glycan 1.1.0 WURCS []{[(4+1)][a-D-GlcpNAc]{[(6+1)][a-L-Fucp]{}}} 3 PDB-CARE LINUCS DManpa1-3[DManpa1-6]DManpa1-4DGlcpNAcb1-4[LFucpa1-6]DGlcpNAcb1- 4 GMML 1.0 Glycam Condensed Sequence WURCS=2.0/3,6,5/[a2122h-1b_1-5_2*NCC/3=O][a1122h-1a_1-5][a1221m-1a_1-5]/1-1-2-2-2-3/a4-b1_a6-f1_b4-c1_c3-d1_c6-e1 4 PDB2Glycan 1.1.0 WURCS []{[(4+1)][b-D-GlcpNAc]{[(4+1)][b-D-GlcpNAc]{[(4+1)][b-D-Manp]{[(3+1)][a-D-Manp]{}[(6+1)][a-D-Manp]{}}}[(6+1)][a-L-Fucp]{}}} 4 PDB-CARE LINUCS C1 O6 FUC NAG 2 1 3 O1 HO6 sing C1 O4 NAG NAG 2 1 4 O1 HO4 sing C1 O4 MAN NAG 3 2 4 O1 HO4 sing C1 O3 MAN MAN 4 3 4 O1 HO3 sing C1 O6 MAN MAN 5 3 4 O1 HO6 sing C1 O6 FUC NAG 6 1 4 O1 HO6 sing n n n n n n n n NAG 2-acetamido-2-deoxy-beta-D-glucopyranose PC6 7-[(DODECANOYLOXY)METHYL]-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-3,5,8-TRIOXA-4-PHOSPHADOTRIACONTAN-1-AMINIUM 4-OXIDE GOL GLYCEROL HOH water 1CD1 PDB experimental model NAG 2 5 NAG NAG 2 A PC6 1 6 PC6 PC6 1 A GOL 2002 7 GOL GOL 2002 B HOH 3 8 HOH HOH 288 A HOH 6 8 HOH HOH 289 A HOH 8 8 HOH HOH 290 A HOH 12 8 HOH HOH 291 A HOH 18 8 HOH HOH 292 A HOH 20 8 HOH HOH 293 A HOH 22 8 HOH HOH 294 A HOH 24 8 HOH HOH 295 A HOH 28 8 HOH HOH 296 A HOH 30 8 HOH HOH 297 A HOH 31 8 HOH HOH 298 A HOH 32 8 HOH HOH 299 A HOH 36 8 HOH HOH 300 A HOH 37 8 HOH HOH 301 A HOH 38 8 HOH HOH 302 A HOH 45 8 HOH HOH 303 A HOH 48 8 HOH HOH 304 A HOH 49 8 HOH HOH 305 A HOH 50 8 HOH HOH 306 A HOH 51 8 HOH HOH 307 A HOH 52 8 HOH HOH 308 A HOH 53 8 HOH HOH 309 A HOH 54 8 HOH HOH 310 A HOH 55 8 HOH HOH 311 A HOH 57 8 HOH HOH 312 A HOH 58 8 HOH HOH 313 A HOH 59 8 HOH HOH 314 A HOH 61 8 HOH HOH 315 A HOH 63 8 HOH HOH 316 A HOH 66 8 HOH HOH 317 A HOH 67 8 HOH HOH 318 A HOH 68 8 HOH HOH 319 A HOH 69 8 HOH HOH 320 A HOH 2 8 HOH HOH 2003 B HOH 4 8 HOH HOH 2004 B HOH 13 8 HOH HOH 2005 B HOH 15 8 HOH HOH 2006 B HOH 17 8 HOH HOH 2007 B HOH 21 8 HOH HOH 2008 B HOH 25 8 HOH HOH 2009 B HOH 27 8 HOH HOH 2010 B HOH 29 8 HOH HOH 2011 B HOH 33 8 HOH HOH 2012 B HOH 35 8 HOH HOH 2013 B HOH 40 8 HOH HOH 2014 B HOH 41 8 HOH HOH 2015 B HOH 46 8 HOH HOH 2016 B HOH 56 8 HOH HOH 2017 B HOH 62 8 HOH HOH 2018 B HOH 64 8 HOH HOH 2019 B ASN 7 n 1 ASN 7 A TYR 8 n 2 TYR 8 A THR 9 n 3 THR 9 A PHE 10 n 4 PHE 10 A ARG 11 n 5 ARG 11 A CYS 12 n 6 CYS 12 A LEU 13 n 7 LEU 13 A GLN 14 n 8 GLN 14 A MET 15 n 9 MET 15 A SER 16 n 10 SER 16 A SER 17 n 11 SER 17 A PHE 18 n 12 PHE 18 A ALA 19 n 13 ALA 19 A ASN 20 n 14 ASN 20 A ARG 21 n 15 ARG 21 A SER 22 n 16 SER 22 A TRP 23 n 17 TRP 23 A SER 24 n 18 SER 24 A ARG 25 n 19 ARG 25 A THR 26 n 20 THR 26 A ASP 27 n 21 ASP 27 A SER 28 n 22 SER 28 A VAL 29 n 23 VAL 29 A VAL 30 n 24 VAL 30 A TRP 31 n 25 TRP 31 A LEU 32 n 26 LEU 32 A GLY 33 n 27 GLY 33 A ASP 34 n 28 ASP 34 A LEU 35 n 29 LEU 35 A GLN 36 n 30 GLN 36 A THR 37 n 31 THR 37 A HIS 38 n 32 HIS 38 A ARG 39 n 33 ARG 39 A TRP 40 n 34 TRP 40 A SER 41 n 35 SER 41 A ASN 42 n 36 ASN 42 A ASP 43 n 37 ASP 43 A SER 44 n 38 SER 44 A ALA 45 n 39 ALA 45 A THR 46 n 40 THR 46 A ILE 47 n 41 ILE 47 A SER 48 n 42 SER 48 A PHE 49 n 43 PHE 49 A THR 50 n 44 THR 50 A LYS 51 n 45 LYS 51 A PRO 52 n 46 PRO 52 A TRP 53 n 47 TRP 53 A SER 54 n 48 SER 54 A GLN 55 n 49 GLN 55 A GLY 56 n 50 GLY 56 A LYS 57 n 51 LYS 57 A LEU 58 n 52 LEU 58 A SER 59 n 53 SER 59 A ASN 60 n 54 ASN 60 A GLN 61 n 55 GLN 61 A GLN 62 n 56 GLN 62 A TRP 63 n 57 TRP 63 A GLU 64 n 58 GLU 64 A LYS 65 n 59 LYS 65 A LEU 66 n 60 LEU 66 A GLN 67 n 61 GLN 67 A HIS 68 n 62 HIS 68 A MET 69 n 63 MET 69 A PHE 70 n 64 PHE 70 A GLN 71 n 65 GLN 71 A VAL 72 n 66 VAL 72 A TYR 73 n 67 TYR 73 A ARG 74 n 68 ARG 74 A VAL 75 n 69 VAL 75 A SER 76 n 70 SER 76 A PHE 77 n 71 PHE 77 A THR 78 n 72 THR 78 A ARG 79 n 73 ARG 79 A ASP 80 n 74 ASP 80 A ILE 81 n 75 ILE 81 A GLN 82 n 76 GLN 82 A GLU 83 n 77 GLU 83 A LEU 84 n 78 LEU 84 A VAL 85 n 79 VAL 85 A LYS 86 n 80 LYS 86 A MET 87 n 81 MET 87 A MET 88 n 82 MET 88 A SER 89 n 83 SER 89 A PRO 90 n 84 PRO 90 A LYS 91 n 85 LYS 91 A GLU 92 n 86 GLU 92 A n 87 93 A n 88 94 A n 89 95 A ILE 96 n 90 ILE 96 A GLU 97 n 91 GLU 97 A ILE 98 n 92 ILE 98 A GLN 99 n 93 GLN 99 A LEU 100 n 94 LEU 100 A SER 101 n 95 SER 101 A ALA 102 n 96 ALA 102 A GLY 103 n 97 GLY 103 A CYS 104 n 98 CYS 104 A GLU 105 n 99 GLU 105 A MET 106 n 100 MET 106 A TYR 107 n 101 TYR 107 A PRO 108 n 102 PRO 108 A GLY 109 n 103 GLY 109 A ASN 110 n 104 ASN 110 A ALA 111 n 105 ALA 111 A SER 112 n 106 SER 112 A GLU 113 n 107 GLU 113 A SER 114 n 108 SER 114 A PHE 115 n 109 PHE 115 A LEU 116 n 110 LEU 116 A HIS 117 n 111 HIS 117 A VAL 118 n 112 VAL 118 A ALA 119 n 113 ALA 119 A PHE 120 n 114 PHE 120 A GLN 121 n 115 GLN 121 A GLY 122 n 116 GLY 122 A LYS 123 n 117 LYS 123 A TYR 124 n 118 TYR 124 A VAL 125 n 119 VAL 125 A VAL 126 n 120 VAL 126 A ARG 127 n 121 ARG 127 A PHE 128 n 122 PHE 128 A TRP 129 n 123 TRP 129 A GLY 130 n 124 GLY 130 A THR 131 n 125 THR 131 A SER 132 n 126 SER 132 A TRP 133 n 127 TRP 133 A GLN 134 n 128 GLN 134 A THR 135 n 129 THR 135 A VAL 136 n 130 VAL 136 A PRO 137 n 131 PRO 137 A GLY 138 n 132 GLY 138 A ALA 139 n 133 ALA 139 A PRO 140 n 134 PRO 140 A SER 141 n 135 SER 141 A TRP 142 n 136 TRP 142 A LEU 143 n 137 LEU 143 A ASP 144 n 138 ASP 144 A LEU 145 n 139 LEU 145 A PRO 146 n 140 PRO 146 A ILE 147 n 141 ILE 147 A LYS 148 n 142 LYS 148 A VAL 149 n 143 VAL 149 A LEU 150 n 144 LEU 150 A ASN 151 n 145 ASN 151 A ALA 152 n 146 ALA 152 A ASP 153 n 147 ASP 153 A GLN 154 n 148 GLN 154 A GLY 155 n 149 GLY 155 A THR 156 n 150 THR 156 A SER 157 n 151 SER 157 A ALA 158 n 152 ALA 158 A THR 159 n 153 THR 159 A VAL 160 n 154 VAL 160 A GLN 161 n 155 GLN 161 A MET 162 n 156 MET 162 A LEU 163 n 157 LEU 163 A LEU 164 n 158 LEU 164 A ASN 165 n 159 ASN 165 A ASP 166 n 160 ASP 166 A THR 167 n 161 THR 167 A CYS 168 n 162 CYS 168 A PRO 169 n 163 PRO 169 A LEU 170 n 164 LEU 170 A PHE 171 n 165 PHE 171 A VAL 172 n 166 VAL 172 A ARG 173 n 167 ARG 173 A GLY 174 n 168 GLY 174 A LEU 175 n 169 LEU 175 A LEU 176 n 170 LEU 176 A GLU 177 n 171 GLU 177 A ALA 178 n 172 ALA 178 A GLY 179 n 173 GLY 179 A LYS 180 n 174 LYS 180 A SER 181 n 175 SER 181 A ASP 182 n 176 ASP 182 A LEU 183 n 177 LEU 183 A GLU 184 n 178 GLU 184 A LYS 185 n 179 LYS 185 A GLN 186 n 180 GLN 186 A GLU 187 n 181 GLU 187 A LYS 188 n 182 LYS 188 A PRO 189 n 183 PRO 189 A VAL 190 n 184 VAL 190 A ALA 191 n 185 ALA 191 A TRP 192 n 186 TRP 192 A LEU 193 n 187 LEU 193 A SER 194 n 188 SER 194 A SER 195 n 189 SER 195 A VAL 196 n 190 VAL 196 A PRO 197 n 191 PRO 197 A SER 198 n 192 SER 198 A SER 199 n 193 SER 199 A ALA 200 n 194 ALA 200 A HIS 201 n 195 HIS 201 A GLY 202 n 196 GLY 202 A HIS 203 n 197 HIS 203 A ARG 204 n 198 ARG 204 A GLN 205 n 199 GLN 205 A LEU 206 n 200 LEU 206 A VAL 207 n 201 VAL 207 A CYS 208 n 202 CYS 208 A HIS 209 n 203 HIS 209 A VAL 210 n 204 VAL 210 A SER 211 n 205 SER 211 A GLY 212 n 206 GLY 212 A PHE 213 n 207 PHE 213 A TYR 214 n 208 TYR 214 A PRO 215 n 209 PRO 215 A LYS 216 n 210 LYS 216 A PRO 217 n 211 PRO 217 A VAL 218 n 212 VAL 218 A TRP 219 n 213 TRP 219 A VAL 220 n 214 VAL 220 A MET 221 n 215 MET 221 A TRP 222 n 216 TRP 222 A MET 223 n 217 MET 223 A ARG 224 n 218 ARG 224 A GLY 225 n 219 GLY 225 A ASP 226 n 220 ASP 226 A GLN 227 n 221 GLN 227 A GLU 228 n 222 GLU 228 A GLN 229 n 223 GLN 229 A GLN 230 n 224 GLN 230 A GLY 231 n 225 GLY 231 A THR 232 n 226 THR 232 A HIS 233 n 227 HIS 233 A ARG 234 n 228 ARG 234 A GLY 235 n 229 GLY 235 A ASP 236 n 230 ASP 236 A PHE 237 n 231 PHE 237 A LEU 238 n 232 LEU 238 A PRO 239 n 233 PRO 239 A ASN 240 n 234 ASN 240 A ALA 241 n 235 ALA 241 A ASP 242 n 236 ASP 242 A GLU 243 n 237 GLU 243 A THR 244 n 238 THR 244 A TRP 245 n 239 TRP 245 A TYR 246 n 240 TYR 246 A LEU 247 n 241 LEU 247 A GLN 248 n 242 GLN 248 A ALA 249 n 243 ALA 249 A THR 250 n 244 THR 250 A LEU 251 n 245 LEU 251 A ASP 252 n 246 ASP 252 A VAL 253 n 247 VAL 253 A GLU 254 n 248 GLU 254 A ALA 255 n 249 ALA 255 A GLY 256 n 250 GLY 256 A GLU 257 n 251 GLU 257 A GLU 258 n 252 GLU 258 A ALA 259 n 253 ALA 259 A GLY 260 n 254 GLY 260 A LEU 261 n 255 LEU 261 A ALA 262 n 256 ALA 262 A CYS 263 n 257 CYS 263 A ARG 264 n 258 ARG 264 A VAL 265 n 259 VAL 265 A LYS 266 n 260 LYS 266 A HIS 267 n 261 HIS 267 A SER 268 n 262 SER 268 A SER 269 n 263 SER 269 A LEU 270 n 264 LEU 270 A GLY 271 n 265 GLY 271 A GLY 272 n 266 GLY 272 A GLN 273 n 267 GLN 273 A ASP 274 n 268 ASP 274 A ILE 275 n 269 ILE 275 A ILE 276 n 270 ILE 276 A LEU 277 n 271 LEU 277 A TYR 278 n 272 TYR 278 A TRP 279 n 273 TRP 279 A ILE 1 n 1 ILE 1 B GLN 2 n 2 GLN 2 B LYS 3 n 3 LYS 3 B THR 4 n 4 THR 4 B PRO 5 n 5 PRO 5 B GLN 6 n 6 GLN 6 B ILE 7 n 7 ILE 7 B GLN 8 n 8 GLN 8 B VAL 9 n 9 VAL 9 B TYR 10 n 10 TYR 10 B SER 11 n 11 SER 11 B ARG 12 n 12 ARG 12 B HIS 13 n 13 HIS 13 B PRO 14 n 14 PRO 14 B PRO 15 n 15 PRO 15 B GLU 16 n 16 GLU 16 B ASN 17 n 17 ASN 17 B GLY 18 n 18 GLY 18 B LYS 19 n 19 LYS 19 B PRO 20 n 20 PRO 20 B ASN 21 n 21 ASN 21 B ILE 22 n 22 ILE 22 B LEU 23 n 23 LEU 23 B ASN 24 n 24 ASN 24 B CYS 25 n 25 CYS 25 B TYR 26 n 26 TYR 26 B VAL 27 n 27 VAL 27 B THR 28 n 28 THR 28 B GLN 29 n 29 GLN 29 B PHE 30 n 30 PHE 30 B HIS 31 n 31 HIS 31 B PRO 32 n 32 PRO 32 B PRO 33 n 33 PRO 33 B HIS 34 n 34 HIS 34 B ILE 35 n 35 ILE 35 B GLU 36 n 36 GLU 36 B ILE 37 n 37 ILE 37 B GLN 38 n 38 GLN 38 B MET 39 n 39 MET 39 B LEU 40 n 40 LEU 40 B LYS 41 n 41 LYS 41 B ASN 42 n 42 ASN 42 B GLY 43 n 43 GLY 43 B LYS 44 n 44 LYS 44 B LYS 45 n 45 LYS 45 B ILE 46 n 46 ILE 46 B PRO 47 n 47 PRO 47 B LYS 48 n 48 LYS 48 B VAL 49 n 49 VAL 49 B GLU 50 n 50 GLU 50 B MET 51 n 51 MET 51 B SER 52 n 52 SER 52 B ASP 53 n 53 ASP 53 B MET 54 n 54 MET 54 B SER 55 n 55 SER 55 B PHE 56 n 56 PHE 56 B SER 57 n 57 SER 57 B LYS 58 n 58 LYS 58 B ASP 59 n 59 ASP 59 B TRP 60 n 60 TRP 60 B SER 61 n 61 SER 61 B PHE 62 n 62 PHE 62 B TYR 63 n 63 TYR 63 B ILE 64 n 64 ILE 64 B LEU 65 n 65 LEU 65 B ALA 66 n 66 ALA 66 B HIS 67 n 67 HIS 67 B THR 68 n 68 THR 68 B GLU 69 n 69 GLU 69 B PHE 70 n 70 PHE 70 B THR 71 n 71 THR 71 B PRO 72 n 72 PRO 72 B THR 73 n 73 THR 73 B GLU 74 n 74 GLU 74 B THR 75 n 75 THR 75 B ASP 76 n 76 ASP 76 B THR 77 n 77 THR 77 B TYR 78 n 78 TYR 78 B ALA 79 n 79 ALA 79 B CYS 80 n 80 CYS 80 B ARG 81 n 81 ARG 81 B VAL 82 n 82 VAL 82 B LYS 83 n 83 LYS 83 B HIS 84 n 84 HIS 84 B ASP 85 n 85 ASP 85 B SER 86 n 86 SER 86 B MET 87 n 87 MET 87 B ALA 88 n 88 ALA 88 B GLU 89 n 89 GLU 89 B PRO 90 n 90 PRO 90 B LYS 91 n 91 LYS 91 B THR 92 n 92 THR 92 B VAL 93 n 93 VAL 93 B TYR 94 n 94 TYR 94 B TRP 95 n 95 TRP 95 B ASP 96 n 96 ASP 96 B ARG 97 n 97 ARG 97 B ASP 98 n 98 ASP 98 B MET 99 n 99 MET 99 B author_and_software_defined_assembly PISA 2 dimeric 7160 5 19160 A ASN 20 GLYCOSYLATION SITE A ASN 14 ASN A ASN 42 GLYCOSYLATION SITE A ASN 36 ASN A ASN 165 GLYCOSYLATION SITE A ASN 159 ASN 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 SER 48 A O SER 42 A N ARG 39 A N ARG 33 A O LEU 35 A O LEU 29 A N LEU 32 A N LEU 26 A O ARG 25 A O ARG 19 A N SER 17 A N SER 11 A N CYS 12 A N CYS 6 A O ALA 102 A O ALA 96 A N GLY 103 A N GLY 97 A O PHE 115 A O PHE 109 A N VAL 118 A N VAL 112 A O VAL 126 A O VAL 120 A N TRP 129 A N TRP 123 A O SER 132 A O SER 126 A N SER 194 A N SER 188 A O VAL 207 A O VAL 201 A N ARG 204 A N ARG 198 A O VAL 253 A O VAL 247 A O THR 250 A O THR 244 A N HIS 233 A N HIS 227 A N SER 194 A N SER 188 A O VAL 207 A O VAL 201 A N ARG 204 A N ARG 198 A O VAL 253 A O VAL 247 A O TYR 246 A O TYR 240 A N LEU 238 A N LEU 232 A O GLN 227 A O GLN 221 A N ARG 224 A N ARG 218 A N MET 223 A N MET 217 A O ALA 262 A O ALA 256 A N VAL 265 A N VAL 259 A O ILE 275 A O ILE 269 B N GLN 8 B N GLN 8 B O TYR 26 B O TYR 26 B N CYS 25 B N CYS 25 B O ALA 66 B O ALA 66 B O HIS 67 B O HIS 67 B N GLU 50 B N GLU 50 B N GLN 8 B N GLN 8 B O TYR 26 B O TYR 26 B N CYS 25 B N CYS 25 B O ALA 66 B O ALA 66 B O TYR 63 B O TYR 63 B N SER 55 B N SER 55 B O LYS 44 B O LYS 44 B N LYS 41 B N LYS 41 B N GLN 38 B N GLN 38 B O ARG 81 B O ARG 81 B N VAL 82 B N VAL 82 B O LYS 91 B O LYS 91 1 A ASP 93 A ASP 87 1 Y 1 A TYR 94 A TYR 88 1 Y 1 A PRO 95 A PRO 89 1 Y 1 C C1 NAG 1 WRONG HAND 1 D C1 MAN 3 WRONG HAND 1 A A O O HOH HOH 289 293 2.08 1 A A SER PRO 89 90 145.34 1 6.02 0.90 118.30 124.32 A A A CB CG OD2 ASP ASP ASP 34 34 34 N 1 5.62 0.90 118.30 123.92 B B B CB CG OD2 ASP ASP ASP 98 98 98 N 1 A ASN 20 -127.54 -145.81 1 A SER 89 47.70 -144.53 1 A LYS 91 178.84 107.58 1 A LEU 116 -161.54 115.23 1 A VAL 125 -130.99 -36.81 1 A ASP 166 -105.64 -66.49 1 B HIS 31 -175.41 136.46 1 B LYS 48 -95.30 30.49 1 B TRP 60 72.48 -15.88 25.724 -1.34 0.00 0.00 -1.16 0.00 2.50 0.896 0.838 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS 0.28097 0.21632 0.22174 0.22174 2.80 76.70 1018 11481 11481 8.1 98.15 16.190 0.309 RANDOM 1 THROUGHOUT 0 MOLECULAR REPLACEMENT 0.430 0.80 0.80 1.20 1CD1 MAXIMUM LIKELIHOOD BABINET MODEL WITH MASK 2.80 76.70 50 3207 170 0 2987 0.005 0.021 3255 0.001 0.020 2836 1.473 1.971 4423 0.766 3.000 6614 7.160 5.000 366 35.718 24.178 146 18.958 15.000 514 23.189 15.000 15 0.078 0.200 481 0.004 0.020 3423 0.001 0.020 629 0.209 0.200 687 0.186 0.200 3012 0.189 0.200 1537 0.089 0.200 2029 0.178 0.200 86 0.110 0.200 10 0.204 0.200 42 0.170 0.200 5 0.688 1.500 2385 0.067 1.500 742 0.773 2.000 2989 0.957 3.000 1665 1.722 4.500 1434 0.385 0.302 2.873 71 792 20 95.57 39.3 2.80 76.70 1ZHN 12734 12734 -3.0 0.056 1 8.4 4.3 98.1 2.80 2.95 2.5 1810 0.29 1 4.0 96.0 data reduction MOSFLM data scaling SCALA phasing MOLREP refinement REFMAC 5.2 data scaling CCP4 (SCALA) Crystal Structure of mouse CD1d bound to the self ligand phosphatidylcholine 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 The biological assembly is a heterodimeric CD1d/beta-2microglobulin complex bound to one PC molecule, as found in the crystal asymmetric unit A SER 59 A SER 53 HELX_P A MET 87 A MET 81 1 1 29 A PRO 140 A PRO 134 HELX_P A TRP 142 A TRP 136 5 2 3 A LEU 143 A LEU 137 HELX_P A ASP 153 A ASP 147 1 3 11 A ASP 153 A ASP 147 HELX_P A ASP 166 A ASP 160 1 4 14 A ASP 166 A ASP 160 HELX_P A GLY 179 A GLY 173 1 5 14 A GLY 179 A GLY 173 HELX_P A GLU 184 A GLU 178 1 6 6 A HIS 267 A HIS 261 HELX_P A GLY 271 A GLY 265 5 7 5 disulf 2.041 A CYS 104 A SG CYS 98 1_555 A CYS 168 A SG CYS 162 1_555 disulf 2.030 A CYS 208 A SG CYS 202 1_555 A CYS 263 A SG CYS 257 1_555 disulf 2.028 B CYS 25 B SG CYS 25 1_555 B CYS 80 B SG CYS 80 1_555 covale 1.447 one N-Glycosylation A NAG 2 E C1 NAG 1_555 A ASN 42 A ND2 ASN 36 1_555 covale 1.445 one N-Glycosylation A ASN 20 A ND2 ASN 14 1_555 C NAG 1 C C1 NAG 1_555 covale 1.442 one N-Glycosylation A ASN 165 A ND2 ASN 159 1_555 D NAG 1 D C1 NAG 1_555 covale 1.446 both C NAG 1 C O6 NAG 1_555 C FUC 2 C C1 FUC 1_555 covale 1.435 both D NAG 1 D O4 NAG 1_555 D NAG 2 D C1 NAG 1_555 covale 1.452 both D NAG 1 D O6 NAG 1_555 D FUC 6 D C1 FUC 1_555 covale 1.447 both D NAG 2 D O4 NAG 1_555 D MAN 3 D C1 MAN 1_555 covale 1.441 both D MAN 3 D O3 MAN 1_555 D MAN 4 D C1 MAN 1_555 covale 1.446 both D MAN 3 D O6 MAN 1_555 D MAN 5 D C1 MAN 1_555 IMMUNE SYSTEM, MEMBRANE PROTEIN MHC fold; antigen binding domain; Ig fold, IMMUNE SYSTEM, MEMBRANE PROTEIN A TYR 214 A TYR 208 1 A PRO 215 A PRO 209 -1.45 B HIS 31 B HIS 31 1 B PRO 32 B PRO 32 5.13 BAB22206 GB 1 25 12832671 NYTFRCLQMSSFANRSWSRTDSVVWLGDLQTHRWSNDSATISFTKPWSQGKLSNQQWEKLQHMFQVYRVSFTRDIQELVK MMSPKEDYPIEIQLSAGCEMYPGNASESFLHVAFQGKYVVRFWGTSWQTVPGAPSWLDLPIKVLNADQGTSATVQMLLND TCPLFVRGLLEAGKSDLEKQEKPVAWLSSVPSSAHGHRQLVCHVSGFYPKPVWVMWMRGDQEQQGTHRGDFLPNADETWY LQATLDVEAGEEAGLACRVKHSSLGGQDIILYW B2MG_MOUSE UNP 2 21 P01887 IQKTPQIQVYSRHPPENGKPNILNCYVTQFHPPHIEIQMLKNGKKIPKVEMSDMSFSKDWSFYILAHTEFTPTETDTYAC RVKHDSMAEPKTVYWDRDM 25 297 1ZHN 7 279 12832671 A 1 1 273 21 119 1ZHN 1 99 P01887 B 2 1 99 8 4 4 4 4 4 4 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 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A SER 48 A SER 42 A PHE 49 A PHE 43 A LEU 35 A LEU 29 A TRP 40 A TRP 34 A SER 24 A SER 18 A LEU 32 A LEU 26 A TYR 8 A TYR 2 A PHE 18 A PHE 12 A GLU 97 A GLU 91 A TYR 107 A TYR 101 A ALA 111 A ALA 105 A PHE 120 A PHE 114 A LYS 123 A LYS 117 A TRP 129 A TRP 123 A SER 132 A SER 126 A THR 135 A THR 129 A VAL 190 A VAL 184 A PRO 197 A PRO 191 A HIS 203 A HIS 197 A PHE 213 A PHE 207 A TRP 245 A TRP 239 A GLU 254 A GLU 248 A HIS 233 A HIS 227 A ARG 234 A ARG 228 A VAL 190 A VAL 184 A PRO 197 A PRO 191 A HIS 203 A HIS 197 A PHE 213 A PHE 207 A TRP 245 A TRP 239 A GLU 254 A GLU 248 A LEU 238 A LEU 232 A PRO 239 A PRO 233 A GLN 227 A GLN 221 A GLU 228 A GLU 222 A TRP 219 A TRP 213 A ARG 224 A ARG 218 A LEU 261 A LEU 255 A LYS 266 A LYS 260 A ILE 275 A ILE 269 A TYR 278 A TYR 272 B GLN 6 B GLN 6 B SER 11 B SER 11 B ASN 21 B ASN 21 B PHE 30 B PHE 30 B PHE 62 B PHE 62 B PHE 70 B PHE 70 B GLU 50 B GLU 50 B MET 51 B MET 51 B GLN 6 B GLN 6 B SER 11 B SER 11 B ASN 21 B ASN 21 B PHE 30 B PHE 30 B PHE 62 B PHE 62 B PHE 70 B PHE 70 B SER 55 B SER 55 B PHE 56 B PHE 56 B LYS 44 B LYS 44 B LYS 45 B LYS 45 B GLU 36 B GLU 36 B LYS 41 B LYS 41 B TYR 78 B TYR 78 B LYS 83 B LYS 83 B LYS 91 B LYS 91 B TYR 94 B TYR 94 19 orthorhombic P 21 21 21