7WTF
SARS-CoV-2 Omicron variant spike in complex with Fab XGv051
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, F, H (H, G, I) | Heavy chain of XGv051 | polymer | 120 | 13067.4 | 3 | Homo sapiens | ||
| 2 | B, G, I (L, J, K) | Light chain of XGv051 | polymer | 104 | 11241.5 | 3 | Homo sapiens | ||
| 3 | C, D, E (B, C, D) | Spike glycoprotein | polymer | 1149 | 127791.1 | 3 | UniProt (P0DTC2) Pfam (PF16451) Pfam (PF09408) Pfam (PF19209) Pfam (PF01601) | Severe acute respiratory syndrome coronavirus 2 | S glycoprotein,E2,Peplomer protein |
| 4 | BA, CA, J, K, N... (b, c, A, E, N...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 15 | In PDB GlyTouCan (G42666HT) | |||
| 5 | AA, L, M, R, S (a, F, M, R, S) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 5 | In PDB GlyTouCan (G15407YE) | |||
| 6 | AB, BB, CB, DA, DB... (D, B, C) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 30 | Chemie (NAG) |
Sequence modifications
B, C, D: 14 - 1164 (UniProt: P0DTC2)
| PDB | External Database | Details |
|---|---|---|
| Val 67 | Ala 67 | variant |
| - | His 69 | deletion |
| - | Val 70 | deletion |
| Ile 95 | Thr 95 | variant |
| Asp 142 | Gly 142 | variant |
| - | Val 143 | deletion |
| - | Tyr 144 | deletion |
| - | Tyr 145 | deletion |
| - | Asn 211 | deletion |
| Ile 211 | Leu 212 | variant |
| Glu 214 | - | insertion |
| Pro 215 | - | insertion |
| Glu 216 | - | insertion |
| Asp 341 | Gly 339 | variant |
| Leu 373 | Ser 371 | variant |
| Pro 375 | Ser 373 | variant |
| Phe 377 | Ser 375 | variant |
| Asn 419 | Lys 417 | variant |
| Lys 442 | Asn 440 | variant |
| Ser 448 | Gly 446 | variant |
| Asn 479 | Ser 477 | variant |
| Lys 480 | Thr 478 | variant |
| Ala 486 | Glu 484 | variant |
| Arg 495 | Gln 493 | variant |
| Ser 498 | Gly 496 | variant |
| Arg 500 | Gln 498 | variant |
| Tyr 503 | Asn 501 | variant |
| His 507 | Tyr 505 | variant |
| Lys 549 | Thr 547 | variant |
| Gly 616 | Asp 614 | variant |
| Tyr 657 | His 655 | variant |
| Ala 685 | Arg 683 | variant |
| Ala 687 | Arg 685 | variant |
| Lys 766 | Asn 764 | variant |
| Tyr 798 | Asp 796 | variant |
| Pro 819 | Phe 817 | variant |
| Lys 858 | Asn 856 | variant |
| Pro 894 | Ala 892 | variant |
| Pro 901 | Ala 899 | variant |
| Pro 944 | Ala 942 | variant |
| His 956 | Gln 954 | variant |
| Lys 971 | Asn 969 | variant |
| Phe 983 | Leu 981 | variant |
| Pro 988 | Lys 986 | engineered mutation |
| Pro 989 | Val 987 | engineered mutation |
| Arg 1165 | - | expression tag |
| Arg 1166 | - | expression tag |
| Ala 1167 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 9 |
| Total formula weight | 456300.1 | |
| Branched | Number of molecules | 20 |
| Total formula weight | 9298.7 | |
| Non-Polymers* | Number of molecules | 30 |
| Total formula weight | 6636.2 | |
| All* | Total formula weight | 472235.1 |
