8S9G
SARS-CoV-2 BN.1 spike RBD bound to the human ACE2 ectodomain and the S309 neutralizing antibody Fab fragment
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A | Processed angiotensin-converting enzyme 2 | polymer | 648 | 74492.4 | 1 | UniProt (Q9BYF1) Pfam (PF01401) In PDB | Homo sapiens (human) | |
| 2 | E | Spike glycoprotein | polymer | 250 | 28473.0 | 1 | UniProt (P0DTC2) Pfam (PF09408) In PDB | Severe acute respiratory syndrome coronavirus | |
| 3 | H | S309 Fab Heavy chain | polymer | 230 | 24573.5 | 1 | Homo sapiens | ||
| 4 | L | S309 Fab Light chain | polymer | 214 | 23204.7 | 1 | Homo sapiens | ||
| 5 | B | alpha-D-mannopyranose-(1-6)-beta-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 | branched | 894.8 | 1 | In PDB GlyTouCan (G00395TQ) | |||
| 6 | A, E | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 5 | Chemie (NAG) |
Sequence modifications
A: 19 - 615 (UniProt: Q9BYF1)
E: 328 - 529 (UniProt: P0DTC2)
| PDB | External Database | Details |
|---|---|---|
| Leu 616 | - | expression tag |
| Val 617 | - | expression tag |
| Pro 618 | - | expression tag |
| Arg 619 | - | expression tag |
| Gly 620 | - | expression tag |
| Ser 621 | - | expression tag |
| Ser 622 | - | expression tag |
| Ala 623 | - | expression tag |
| Trp 624 | - | expression tag |
| Ser 625 | - | expression tag |
| His 626 | - | expression tag |
| Pro 627 | - | expression tag |
| Gln 628 | - | expression tag |
| Phe 629 | - | expression tag |
| Glu 630 | - | expression tag |
| Lys 631 | - | expression tag |
| Gly 632 | - | expression tag |
| Gly 633 | - | expression tag |
| Gly 634 | - | expression tag |
| Ser 635 | - | expression tag |
| Gly 636 | - | expression tag |
| Gly 637 | - | expression tag |
| Gly 638 | - | expression tag |
| Ser 639 | - | expression tag |
| Gly 640 | - | expression tag |
| Gly 641 | - | expression tag |
| Ser 642 | - | expression tag |
| Ala 643 | - | expression tag |
| Trp 644 | - | expression tag |
| Ser 645 | - | expression tag |
| His 646 | - | expression tag |
| Pro 647 | - | expression tag |
| Gln 648 | - | expression tag |
| Phe 649 | - | expression tag |
| Glu 650 | - | expression tag |
| Lys 651 | - | expression tag |
| Gly 652 | - | expression tag |
| Ser 653 | - | expression tag |
| His 654 | - | expression tag |
| His 655 | - | expression tag |
| His 656 | - | expression tag |
| His 657 | - | expression tag |
| His 658 | - | expression tag |
| His 659 | - | expression tag |
| His 660 | - | expression tag |
| His 661 | - | expression tag |
| His 662 | - | expression tag |
| His 663 | - | expression tag |
| Gly 664 | - | expression tag |
| Gly 665 | - | expression tag |
| Gly 666 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Met 309 | - | initiating methionine |
| Glu 310 | - | expression tag |
| Trp 311 | - | expression tag |
| Ser 312 | - | expression tag |
| Trp 313 | - | expression tag |
| Val 314 | - | expression tag |
| Phe 315 | - | expression tag |
| Leu 316 | - | expression tag |
| Phe 317 | - | expression tag |
| Phe 318 | - | expression tag |
| Leu 319 | - | expression tag |
| Ser 320 | - | expression tag |
| Val 321 | - | expression tag |
| Thr 322 | - | expression tag |
| Thr 323 | - | expression tag |
| Gly 324 | - | expression tag |
| Val 325 | - | expression tag |
| His 326 | - | expression tag |
| Ser 327 | - | expression tag |
| His 339 | Gly 339 | conflict |
| Thr 346 | Arg 346 | conflict |
| Thr 356 | Lys 356 | conflict |
| Phe 371 | Ser 371 | conflict |
| Pro 373 | Ser 373 | conflict |
| Phe 375 | Ser 375 | conflict |
| Ala 376 | Thr 376 | conflict |
| Asn 405 | Asp 405 | conflict |
| Ser 408 | Arg 408 | conflict |
| Asn 417 | Lys 417 | conflict |
| Lys 440 | Asn 440 | conflict |
| Ser 446 | Gly 446 | conflict |
| Lys 460 | Asn 460 | conflict |
| Asn 477 | Ser 477 | conflict |
| Lys 478 | Thr 478 | conflict |
| Ala 484 | Glu 484 | conflict |
| Ser 490 | Phe 490 | conflict |
| Arg 498 | Gln 498 | conflict |
| Tyr 501 | Asn 501 | conflict |
| His 505 | Tyr 505 | conflict |
| Ser 530 | - | expression tag |
| Thr 531 | - | expression tag |
| His 532 | - | expression tag |
| His 533 | - | expression tag |
| His 534 | - | expression tag |
| His 535 | - | expression tag |
| His 536 | - | expression tag |
| His 537 | - | expression tag |
| His 538 | - | expression tag |
| His 539 | - | expression tag |
| Gly 540 | - | expression tag |
| Ser 541 | - | expression tag |
| Gly 542 | - | expression tag |
| Ser 543 | - | expression tag |
| Gly 544 | - | expression tag |
| Leu 545 | - | expression tag |
| Asn 546 | - | expression tag |
| Asp 547 | - | expression tag |
| Ile 548 | - | expression tag |
| Phe 549 | - | expression tag |
| Glu 550 | - | expression tag |
| Ala 551 | - | expression tag |
| Gln 552 | - | expression tag |
| Lys 553 | - | expression tag |
| Ile 554 | - | expression tag |
| Glu 555 | - | expression tag |
| Trp 556 | - | expression tag |
| His 557 | - | expression tag |
| Glu 558 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 4 |
| Total formula weight | 150743.6 | |
| Branched | Number of molecules | 1 |
| Total formula weight | 894.8 | |
| Non-Polymers* | Number of molecules | 5 |
| Total formula weight | 1106.0 | |
| All* | Total formula weight | 152744.4 |
