7WT7
SARS-CoV-2 Omicron variant spike in complex with Fab 9A8 (State 1)
Entity
Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
1 | A, B, C | Spike glycoprotein | polymer | 1270 | 141277.9 | 3 | UniProt (P0DTC2) Pfam (PF16451) Pfam (PF09408) Pfam (PF19209) Pfam (PF01601) In PDB | Severe acute respiratory syndrome coronavirus 2 | S glycoprotein,E2,Peplomer protein |
2 | H | Heavy chain of Fab 9A8 | polymer | 122 | 12998.5 | 1 | Homo sapiens | ||
3 | D | Light chain of Fab 9A8 | polymer | 107 | 11816.0 | 1 | Homo sapiens | ||
4 | E | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 1 | In PDB GlyTouCan (G15407YE) | |||
5 | F, G, I | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 3 | In PDB GlyTouCan (G42666HT) | |||
6 | B, A, C | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 41 | Chemie (NAG) |
Sequence modifications
A, B, C: 1 - 1270 (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 |
Ile 208 | Leu 212 | variant |
Glu 211 | - | insertion |
Pro 212 | - | insertion |
Glu 213 | - | insertion |
Asp 336 | Gly 339 | variant |
Leu 368 | Ser 371 | variant |
Pro 370 | Ser 373 | variant |
Phe 372 | Ser 375 | variant |
Asn 414 | Lys 417 | variant |
Lys 437 | Asn 440 | variant |
Ser 443 | Gly 446 | variant |
Asn 474 | Ser 477 | variant |
Lys 475 | Thr 478 | variant |
Ala 481 | Glu 484 | variant |
Arg 490 | Gln 493 | variant |
Ser 493 | Gly 496 | variant |
Arg 495 | Gln 498 | variant |
Tyr 498 | Asn 501 | variant |
His 502 | Tyr 505 | variant |
Lys 544 | Thr 547 | variant |
Gly 611 | Asp 614 | variant |
Tyr 652 | His 655 | variant |
Lys 676 | Asn 679 | variant |
His 678 | Pro 681 | variant |
Ala 680 | Arg 683 | variant |
Ala 682 | Arg 685 | variant |
Lys 761 | Asn 764 | variant |
Tyr 793 | Asp 796 | variant |
Pro 814 | Phe 817 | engineered mutation |
Lys 853 | Asn 856 | variant |
Pro 889 | Ala 892 | engineered mutation |
Pro 896 | Ala 899 | engineered mutation |
Pro 939 | Ala 942 | engineered mutation |
His 951 | Gln 954 | variant |
Lys 966 | Asn 969 | variant |
Phe 978 | Leu 981 | variant |
Pro 983 | Lys 986 | engineered mutation |
Pro 984 | Val 987 | engineered mutation |
Sequence viewer
Contents of the asymmetric unit
Polymers | Number of chains | 5 |
Total formula weight | 448648.2 | |
Branched | Number of molecules | 4 |
Total formula weight | 1859.7 | |
Non-Polymers* | Number of molecules | 41 |
Total formula weight | 9069.5 | |
All* | Total formula weight | 459577.5 |