3OL2 - Sequence, Chains, Asymmetric and Biological Units

• Title: RECEPTOR-LIGAND STRUCTURE OF HUMAN SEMAPHORIN 4D WITH PLEXIN
• Keywords: BETA-PROPELLER, SIGNALLING, EXTACELLULAR, SIGNALING PROTEIN
• Experiment: X-ray diffraction
• Number of Models: 1

Database	ID code	Status	Coordinate files
			Header	Asymmetric unit	Biological unit
PDB	3OL2	released	available	available	Quaternary Structure Server

Asymmetric unit from PDB

Unit	Type	Name	Chain ID	Residues	Atoms	Hetatoms
1	Protein	SEMAPHORIN-4D	A	614	4866	0
2	Protein	PLEXIN-B1	B	496	3747	0
3	Ligand		C	3	0	39
4	Ligand		D	2	0	28
5	Ligand		E	3	0	39
6	Ligand		F	2	0	28
7	Ligand		G	2	0	28
8	Ligand		H	3	0	39
9	Ligand	SEMAPHORIN-4D	A	1	0	14
total				1126	8613	215

Proteins

Unit 1

PHE 24 ALA 25 PRO 26 ILE 27 PRO 28 ARG 29 ILE 30 THR 31 TRP 32 GLU 33 HIS 34 ARG 35 GLU 36 VAL 37 HIS 38 LEU 39 VAL 40 GLN 41 PHE 42 HIS 43 GLU 44 PRO 45 ASP 46 ILE 47 TYR 48 ASN 49 TYR 50 SER 51 ALA 52 LEU 53 LEU 54 LEU 55 SER 56 GLU 57 ASP 58 LYS 59 ASP 60 THR 61 LEU 62 TYR 63 ILE 64 GLY 65 ALA 66 ARG 67 GLU 68 ALA 69 VAL 70 PHE 71 ALA 72 VAL 73 ASN 74 ALA 75 LEU 76 ASN 77 ILE 78 SER 79 GLU 80 LYS 81 GLN 82 HIS 83 GLU 84 VAL 85 TYR 86 TRP 87 LYS 88 VAL 89 SER 90 GLU 91 ASP 92 LYS 93 LYS 94 ALA 95 LYS 96 CYS 97 ALA 98 GLU 99 LYS 100 GLY 101 LYS 102 SER 103 LYS 104 GLN 105 THR 106 GLU 107 CYS 108 LEU 109 ASN 110 TYR 111 ILE 112 ARG 113 VAL 114 LEU 115 GLN 116 PRO 117 LEU 118 SER 119 ALA 120 THR 121 SER 122 LEU 123 TYR 124 VAL 125 CYS 126 GLY 127 THR 128 ASN 129 ALA 130 PHE 131 GLN 132 PRO 133 ALA 134 CYS 135 ASP 136 HIS 137 LEU 138 ASN 139 LEU 140 THR 141 SER 142 PHE 143 LYS 144 PHE 145 LEU 146 GLY 147 LYS 148 ASN 149 GLU 150 ASP 151 GLY 152 LYS 153 GLY 154 ARG 155 CYS 156 PRO 157 PHE 158 ASP 159 PRO 160 ALA 161 HIS 162 SER 163 TYR 164 THR 165 SER 166 VAL 167 MET 168 VAL 169 ASP 170 GLY 171 GLU 172 LEU 173 TYR 174 SER 175 GLY 176 THR 177 SER 178 TYR 179 ASN 180 PHE 181 LEU 182 GLY 183 SER 184 GLU 185 PRO 186 ILE 187 ILE 188 SER 189 ARG 190 ASN 191 SER 192 SER 193 HIS 194 SER 195 PRO 196 LEU 197 ARG 198 THR 199 GLU 200 TYR 201 ALA 202 ILE 203 PRO 204 TRP 205 LEU 206 ASN 207 GLU 208 PRO 209 SER 210 PHE 211 VAL 212 PHE 213 ALA 214 ASP 215 VAL 216 ILE 217 ARG 218 LYS 219 GLY 226 GLU 227 ASP 228 ASP 229 ARG 230 VAL 231 TYR 232 PHE 233 PHE 234 PHE 235 THR 236 GLU 237 VAL 238 SER 239 VAL 240 GLU 241 TYR 242 GLU 243 PHE 244 VAL 245 PHE 246 ARG 247 VAL 248 LEU 249 ILE 250 PRO 251 ARG 252 ILE 253 ALA 254 ARG 255 VAL 256 CYS 257 LYS 258 GLY 259 ASP 260 GLN 261 GLY 262 GLY 263 LEU 264 ARG 265 THR 266 LEU 267 GLN 268 LYS 269 LYS 270 TRP 271 THR 272 SER 273 PHE 274 LEU 275 LYS 276 ALA 277 ARG 278 LEU 279 ILE 280 CYS 281 SER 282 ARG 283 PRO 284 ASP 285 SER 286 GLY 287 LEU 288 VAL 289 PHE 290 ASN 291 VAL 292 LEU 293 ARG 294 ASP 295 VAL 296 PHE 297 VAL 298 LEU 299 ARG 300 SER 301 PRO 302 GLY 303 LEU 304 LYS 305 VAL 306 PRO 307 VAL 308 PHE 309 TYR 310 ALA 311 LEU 312 PHE 313 THR 314 PRO 315 GLN 316 LEU 317 ASN 318 ASN 319 VAL 320 GLY 321 LEU 322 SER 323 ALA 324 VAL 325 CYS 326 ALA 327 TYR 328 ASN 329 LEU 330 SER 331 THR 332 ALA 333 GLU 334 GLU 335 VAL 336 PHE 337 SER 338 HIS 339 GLY 340 LYS 341 TYR 342 MET 343 GLN 344 SER 345 THR 346 THR 347 VAL 348 GLU 349 GLN 350 SER 351 HIS 352 THR 353 LYS 354 TRP 355 VAL 356 ARG 357 TYR 358 ASN 359 GLY 360 PRO 361 VAL 362 PRO 363 LYS 364 PRO 365 ARG 366 PRO 367 GLY 368 ALA 369 CYS 370 ILE 371 ASP 372 SER 373 GLU 374 ALA 375 ARG 376 ALA 377 ALA 378 ASN 379 TYR 380 THR 381 SER 382 SER 383 LEU 384 ASN 385 LEU 386 PRO 387 ASP 388 LYS 389 THR 390 LEU 391 GLN 392 PHE 393 VAL 394 LYS 395 ASP 396 HIS 397 PRO 398 LEU 399 MET 400 ASP 401 ASP 402 SER 403 VAL 404 THR 405 PRO 406 ILE 407 ASP 408 ASN 409 ARG 410 PRO 411 ARG 412 LEU 413 ILE 414 LYS 415 LYS 416 ASP 417 VAL 418 ASN 419 TYR 420 THR 421 GLN 422 ILE 423 VAL 424 VAL 425 ASP 426 ARG 427 THR 428 GLN 429 ALA 430 LEU 431 ASP 432 GLY 433 THR 434 VAL 435 TYR 436 ASP 437 VAL 438 MET 439 PHE 440 VAL 441 SER 442 THR 443 ASP 444 ARG 445 GLY 446 ALA 447 LEU 448 HIS 449 LYS 450 ALA 451 ILE 452 SER 453 LEU 454 GLU 455 HIS 456 ALA 457 VAL 458 HIS 459 ILE 460 ILE 461 GLU 462 GLU 463 THR 464 GLN 465 LEU 466 PHE 467 GLN 468 ASP 469 PHE 470 GLU 471 PRO 472 VAL 473 GLN 474 THR 475 LEU 476 LEU 477 LEU 478 SER 479 SER 480 LYS 481 LYS 482 GLY 483 ASN 484 ARG 485 PHE 486 VAL 487 TYR 488 ALA 489 GLY 490 SER 491 ASN 492 SER 493 GLY 494 VAL 495 VAL 496 GLN 497 ALA 498 PRO 499 LEU 500 ALA 501 PHE 502 CYS 503 GLY 504 LYS 505 HIS 506 GLY 507 THR 508 CYS 509 GLU 510 ASP 511 CYS 512 VAL 513 LEU 514 ALA 515 ARG 516 ASP 517 PRO 518 TYR 519 CYS 520 ALA 521 TRP 522 SER 523 PRO 524 PRO 525 THR 526 ALA 527 THR 528 CYS 529 VAL 530 ALA 531 LEU 532 HIS 533 GLN 534 THR 535 GLU 536 SER 537 PRO 538 SER 539 ARG 540 GLY 541 LEU 542 ILE 543 GLN 544 GLU 545 MET 546 SER 547 GLY 548 ASP 549 ALA 550 SER 551 VAL 552 CYS 553 PRO 554 ASP 555 TYR 561 ARG 562 GLN 563 HIS 564 PHE 565 PHE 566 LYS 567 HIS 568 GLY 569 GLY 570 THR 571 ALA 572 GLU 573 LEU 574 LYS 575 CYS 576 SER 577 GLN 578 LYS 579 SER 580 ASN 581 LEU 582 ALA 583 ARG 584 VAL 585 PHE 586 TRP 587 LYS 588 PHE 589 GLN 590 ASN 591 GLY 592 VAL 593 LEU 594 LYS 595 ALA 596 GLU 597 SER 598 PRO 599 LYS 600 TYR 601 GLY 602 LEU 603 MET 604 GLY 605 ARG 606 LYS 607 ASN 608 LEU 609 LEU 610 ILE 611 PHE 612 ASN 613 LEU 614 SER 615 GLU 616 GLY 617 ASP 618 SER 619 GLY 620 VAL 621 TYR 622 GLN 623 CYS 624 LEU 625 SER 626 GLU 627 GLU 628 ARG 629 VAL 630 LYS 631 ASN 632 LYS 633 THR 634 VAL 635 PHE 636 GLN 637 VAL 638 VAL 639 ALA 640 LYS 641 HIS 642 VAL 643 LEU 644 GLU 645 VAL 646 LYS 647 VAL 648

Unit 2

LEU 23 PRO 24 PRO 25 THR 26 ALA 27 PHE 28 THR 29 PRO 30 ASN 31 GLY 32 THR 33 TYR 34 LEU 35 GLN 36 HIS 37 LEU 38 ALA 39 ARG 40 ASP 41 PRO 42 THR 43 SER 44 GLY 45 THR 46 LEU 47 TYR 48 LEU 49 GLY 50 ALA 51 THR 52 ASN 53 PHE 54 LEU 55 PHE 56 GLN 57 LEU 58 SER 59 PRO 60 GLY 61 LEU 62 GLN 63 LEU 64 GLU 65 ALA 66 THR 67 VAL 68 SER 69 THR 70 GLY 71 PRO 72 VAL 73 LEU 74 ASP 75 SER 76 ARG 77 ASP 78 CYS 79 LEU 80 PRO 81 PRO 82 VAL 83 MET 84 PRO 85 ASP 86 GLU 87 CYS 88 PRO 89 GLN 90 ALA 91 GLN 92 PRO 93 THR 94 ASN 95 ASN 96 PRO 97 ASN 98 GLN 99 LEU 100 LEU 101 LEU 102 VAL 103 SER 104 PRO 105 GLY 106 ALA 107 LEU 108 VAL 109 VAL 110 CYS 111 GLY 112 SER 113 VAL 114 HIS 115 GLN 116 GLY 117 VAL 118 CYS 119 GLU 120 GLN 121 ARG 122 ARG 123 LEU 124 GLY 125 GLN 126 LEU 127 GLU 128 GLN 129 LEU 130 LEU 131 LEU 132 ARG 133 PRO 134 GLU 135 ARG 136 PRO 137 GLY 138 ASP 139 THR 140 GLN 141 TYR 142 VAL 143 ALA 144 ALA 145 ASN 146 ASP 147 PRO 148 ALA 149 VAL 150 SER 151 THR 152 VAL 153 GLY 154 LEU 155 VAL 156 ALA 157 GLN 158 GLY 159 LEU 160 ALA 161 GLY 162 GLU 163 PRO 164 LEU 165 LEU 166 PHE 167 VAL 168 GLY 169 ARG 170 GLY 171 TYR 172 THR 173 SER 174 GLY 178 GLY 179 GLY 180 ILE 181 PRO 182 PRO 183 ILE 184 THR 185 THR 186 ARG 187 ALA 188 LEU 189 TRP 190 PRO 191 PRO 192 ASP 193 PRO 194 GLN 195 ALA 196 ALA 197 PHE 198 SER 199 TYR 200 GLU 201 GLU 202 THR 203 ALA 204 LYS 205 LEU 206 ALA 207 VAL 208 GLY 209 ARG 210 LEU 211 SER 212 GLU 213 TYR 214 SER 215 HIS 216 HIS 217 PHE 218 VAL 219 SER 220 ALA 221 PHE 222 ALA 223 ARG 224 GLY 225 ALA 226 SER 227 ALA 228 TYR 229 PHE 230 LEU 231 PHE 232 LEU 233 ARG 234 ARG 235 ASP 236 LEU 237 GLN 238 ALA 239 GLN 240 SER 241 ARG 242 ALA 243 PHE 244 ARG 245 ALA 246 TYR 247 VAL 248 SER 249 ARG 250 VAL 251 CYS 252 LEU 253 ARG 254 ASP 255 GLN 256 HIS 257 TYR 258 TYR 259 SER 260 TYR 261 VAL 262 GLU 263 LEU 264 PRO 265 LEU 266 ALA 267 CYS 268 GLU 269 GLY 270 GLY 271 ARG 272 TYR 273 GLY 274 LEU 275 ILE 276 GLN 277 ALA 278 ALA 279 ALA 280 VAL 281 ALA 282 THR 283 SER 284 ALA 288 HIS 289 GLY 290 GLU 291 VAL 292 LEU 293 PHE 294 ALA 295 ALA 296 PHE 297 SER 298 SER 299 ALA 300 ALA 301 PRO 302 PRO 308 PRO 309 SER 310 ALA 311 ALA 312 ALA 313 GLY 314 ALA 315 SER 316 GLY 317 ALA 318 SER 319 ALA 320 LEU 321 CYS 322 ALA 323 PHE 324 PRO 325 LEU 326 ASP 327 GLU 328 VAL 329 ASP 330 ARG 331 LEU 332 ALA 333 ASN 334 ARG 335 THR 336 ARG 337 ASP 338 ALA 339 CYS 340 TYR 341 THR 342 ARG 343 GLU 344 GLY 345 ARG 346 ALA 347 GLU 348 ASP 349 GLY 350 THR 351 GLU 352 VAL 353 ALA 354 TYR 355 ILE 356 GLU 357 TYR 358 ASP 359 VAL 360 ASN 361 SER 362 ASP 363 CYS 364 ALA 365 GLN 366 LEU 367 PRO 368 VAL 369 ASP 370 THR 371 LEU 372 ASP 373 ALA 374 TYR 375 PRO 376 CYS 377 GLY 378 SER 379 ASP 380 HIS 381 THR 382 PRO 383 SER 384 PRO 385 MET 386 ALA 387 SER 388 ARG 389 VAL 390 PRO 391 LEU 392 GLU 393 ALA 394 THR 395 PRO 396 ILE 397 LEU 398 GLU 399 TRP 400 PRO 401 GLY 402 ILE 403 GLN 404 LEU 405 THR 406 ALA 407 VAL 408 ALA 409 VAL 410 THR 411 MET 412 GLU 413 ASP 414 GLY 415 HIS 416 THR 417 ILE 418 ALA 419 PHE 420 LEU 421 GLY 422 ASP 423 SER 424 GLN 425 GLY 426 GLN 427 LEU 428 HIS 429 ARG 430 VAL 431 TYR 432 LEU 433 GLY 434 PRO 435 GLY 436 SER 437 ASP 438 GLY 439 HIS 440 PRO 441 TYR 442 SER 443 THR 444 GLN 445 SER 446 ILE 447 GLN 448 GLN 449 GLY 450 SER 451 ALA 452 VAL 453 SER 454 ARG 455 ASP 456 LEU 457 THR 458 PHE 459 ASP 460 GLY 461 THR 462 PHE 463 GLU 464 HIS 465 LEU 466 TYR 467 VAL 468 MET 469 THR 470 GLN 471 SER 472 THR 473 LEU 474 LEU 475 LYS 476 VAL 477 PRO 478 VAL 479 ALA 480 SER 481 CYS 482 ALA 483 GLN 484 HIS 485 LEU 486 ASP 487 CYS 488 ALA 489 SER 490 CYS 491 LEU 492 ALA 493 HIS 494 ARG 495 ASP 496 PRO 497 TYR 498 CYS 499 GLY 500 TRP 501 CYS 502 VAL 503 LEU 504 LEU 505 GLY 506 ARG 507 CYS 508 SER 509 ARG 510 ARG 511 SER 512 GLU 513 CYS 514 SER 515 PRO 520 GLU 521 GLN 522 TRP 523 LEU 524 TRP 525 SER 526 PHE 527 GLN 528 PRO 529 GLU 530 LEU 531 GLY 532 CYS 533

Ligands

Unit 3	NAG 1 NAG 2 BMA 3
Unit 4	NAG 1 NAG 2
Unit 5	NAG 1 NAG 2 BMA 3
Unit 6	NAG 1 NAG 2
Unit 7	NAG 1 NAG 2
Unit 8	NAG 1 NAG 2 BMA 3
Unit 9	NAG 3000