8CMH
Human Leukocyte Antigen class II allotype DR1 presenting SARS-CoV-2 Omicron (BA.1) Spike peptide S486-505
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | HLA class II histocompatibility antigen, DR alpha chain | polymer | 183 | 21287.1 | 1 | UniProt (P01903) Pfam (PF00993) Pfam (PF07654) | Homo sapiens (human) | MHC class II antigen DRA |
| 2 | B (B) | Human leukocyte antigen DR beta chain allotype DR1 (DRB1*0101) | polymer | 194 | 22487.2 | 1 | Pfam (PF00969) Pfam (PF07654) UniProt (by SIFTS) (D7RIG0) | Homo sapiens | |
| 3 | C (C) | Spike protein S2' | polymer | 20 | 2414.7 | 1 | UniProt (P0DTC2) | Severe acute respiratory syndrome coronavirus 2 | SARS-Cov-2 Omicron (BA.1) Spike epitope S486-505 |
| 4 | AA, BA, CA, D, DA... (B, A) | 1,2-ETHANEDIOL | non-polymer | 62.1 | 30 | Chemie (EDO) | |||
| 5 | U (A) | SULFATE ION | non-polymer | 96.1 | 1 | Chemie (SO4) | |||
| 6 | IA (C) | 2-AMINO-ETHANETHIOL | non-polymer | 77.1 | 1 | Chemie (DHL) | |||
| 7 | JA, KA, LA (A, B, C) | water | water | 18.0 | 325 | Chemie (HOH) |
Sequence modifications
A: 1 - 182 (UniProt: P01903)
C: 1 - 20 (UniProt: P0DTC2)
| PDB | External Database | Details |
|---|---|---|
| Met 0 | - | initiating methionine |
| PDB | External Database | Details |
|---|---|---|
| Arg 8 | Gln 493 | variant |
| Ser 11 | Gly 496 | variant |
| Arg 13 | Gln 498 | variant |
| Tyr 16 | Asn 501 | variant |
| His 20 | Tyr 505 | variant |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 3 |
| Total formula weight | 46189.0 | |
| Non-Polymers* | Number of molecules | 32 |
| Total formula weight | 2035.3 | |
| All* | Total formula weight | 48224.3 |
