7TO4
Structural and functional impact by SARS-CoV-2 Omicron spike mutations
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 | 141490.1 | 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 | a, D, E, F, G... | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 11 | In PDB GlyTouCan (G42666HT) | |||
| 3 | d, I, S | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 570.5 | 3 | In PDB GlyTouCan (G21290RB) | |||
| 4 | b, c, e, f, J... | alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 15 | In PDB GlyTouCan (G62182OO) | |||
| 5 | C, A, B | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 25 | Chemie (NAG) |
Sequence modifications
A, B, C: 1 - 1273 (UniProt: P0DTC2)
| PDB | External Database | Details |
|---|---|---|
| Val 67 | Ala 67 | variant |
| - | His 69 | deletion |
| - | Val 70 | deletion |
| Ile 95 | Thr 95 | variant |
| - | Leu 141 | deletion |
| - | Gly 142 | deletion |
| - | Val 143 | deletion |
| Phe 144 | Tyr 144 | variant |
| Asp 145 | Tyr 145 | variant |
| Ile 212 | - | insertion |
| Val 213 | - | insertion |
| Arg 214 | Asn 211 | variant |
| Glu 214 | Leu 212 | variant |
| Pro 214 | Val 213 | variant |
| Glu 214 | Arg 214 | variant |
| Asp 339 | Gly 339 | variant |
| Leu 371 | Ser 371 | variant |
| Pro 373 | Ser 373 | variant |
| Phe 375 | Ser 375 | variant |
| Asn 417 | Lys 417 | variant |
| Lys 440 | Asn 440 | variant |
| Ser 446 | Gly 446 | variant |
| Asn 477 | Ser 477 | variant |
| Lys 478 | Thr 478 | variant |
| Ala 484 | Glu 484 | variant |
| Arg 493 | Gln 493 | variant |
| Ser 496 | Gly 496 | variant |
| Arg 498 | Gln 498 | variant |
| Tyr 501 | Asn 501 | variant |
| His 505 | Tyr 505 | variant |
| Lys 547 | Thr 547 | variant |
| Gly 614 | Asp 614 | variant |
| Tyr 655 | His 655 | variant |
| Lys 679 | Asn 679 | variant |
| His 681 | Pro 681 | variant |
| Lys 764 | Asn 764 | variant |
| Tyr 796 | Asp 796 | variant |
| Lys 856 | Asn 856 | variant |
| His 954 | Gln 954 | variant |
| Lys 969 | Asn 969 | variant |
| Phe 981 | Leu 981 | variant |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 3 |
| Total formula weight | 424470.4 | |
| Branched | Number of molecules | 29 |
| Total formula weight | 15178.2 | |
| Non-Polymers* | Number of molecules | 25 |
| Total formula weight | 5530.2 | |
| All* | Total formula weight | 445178.8 |
