7Q0I
Crystal structure of the N-terminal domain of SARS-CoV-2 beta variant spike glycoprotein in complex with Beta-43
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | H, A | Beta-43 heavy chain | polymer | 231 | 24764.7 | 2 | Homo sapiens | ||
| 2 | L, B | Beta-43 Fab light chain | polymer | 214 | 22916.2 | 2 | Homo sapiens | ||
| 3 | D, C | Spike protein S1 | polymer | 311 | 35561.0 | 2 | UniProt (P0DTC2) Pfam (PF16451) In PDB | Severe acute respiratory syndrome coronavirus 2 | |
| 4 | E, G | alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 367.3 | 2 | In PDB GlyTouCan (G86851RC) | |||
| 5 | F | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 570.5 | 1 | In PDB GlyTouCan (G21290RB) | |||
| 6 | I | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 1 | In PDB GlyTouCan (G42666HT) | |||
| 7 | J | 2-acetamido-2-deoxy-beta-D-glucopyranose-(4-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 1 | ||||
| 8 | H, L, A | CHLORIDE ION | non-polymer | 35.5 | 6 | Chemie (CL) | |||
| 9 | L | DI(HYDROXYETHYL)ETHER | non-polymer | 106.1 | 1 | Chemie (PEG) | |||
| 10 | L, A, B | GLYCEROL | non-polymer | 92.1 | 3 | Chemie (GOL) | |||
| 11 | B | PHOSPHATE ION | non-polymer | 95.0 | 1 | Chemie (PO4) | |||
| 12 | C, D | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 7 | Chemie (NAG) | |||
| 13 | D | TETRAETHYLENE GLYCOL | non-polymer | 194.2 | 1 | Chemie (PG4) | |||
| 14 | water | water | 18.0 | 157 | Chemie (HOH) |
Sequence modifications
D, C: 13 - 302 (UniProt: P0DTC2)
| PDB | External Database | Details |
|---|---|---|
| Phe 18 | Leu 18 | variant |
| Ala 80 | Asp 80 | variant |
| Gly 215 | Asp 215 | variant |
| - | Leu 242 | deletion |
| - | Ala 243 | deletion |
| - | Leu 244 | deletion |
| Ile 243 | Arg 246 | variant |
| Leu 303 | - | expression tag |
| Asn 304 | - | expression tag |
| Asp 305 | - | expression tag |
| Ile 306 | - | expression tag |
| Phe 307 | - | expression tag |
| Glu 308 | - | expression tag |
| Ala 309 | - | expression tag |
| Gln 310 | - | expression tag |
| Lys 311 | - | expression tag |
| Ile 312 | - | expression tag |
| Glu 313 | - | expression tag |
| Trp 314 | - | expression tag |
| His 315 | - | expression tag |
| Glu 316 | - | expression tag |
| Lys 317 | - | expression tag |
| His 318 | - | expression tag |
| His 319 | - | expression tag |
| His 320 | - | expression tag |
| His 321 | - | expression tag |
| His 322 | - | expression tag |
| His 323 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 6 |
| Total formula weight | 166484.0 | |
| Branched | Number of molecules | 5 |
| Total formula weight | 2154.0 | |
| Non-Polymers* | Number of molecules | 19 |
| Total formula weight | 2432.8 | |
| All* | Total formula weight | 171070.8 |
