6MSS
Diversity in the type II Natural Killer T cell receptor repertoire and antigen specificity leads to differing CD1d docking strategies
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | A11B8.2 NKT TCR alpha-chain | polymer | 203 | 22644.1 | 1 | Mus musculus (Mouse) | ||
| 2 | B (B) | A11B8.2 NKT TCR beta-chain | polymer | 245 | 27412.3 | 1 | Mus musculus (Mouse) | ||
| 3 | C (C) | Antigen-presenting glycoprotein CD1d1 | polymer | 302 | 34662.0 | 1 | UniProt (P11609) Pfam (PF16497) Pfam (PF07654) | Mus musculus (Mouse) | |
| 4 | D (D) | Beta-2-microglobulin | polymer | 99 | 11660.4 | 1 | UniProt (P01887) Pfam (PF07654) | Mus musculus (Mouse) | |
| 5 | E (E) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 1 | In PDB GlyTouCan (G42666HT) | |||
| 6 | F, G (C) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 2 | Chemie (NAG) | |||
| 7 | H (C) | (2S)-2-(heptadecanoyloxy)-3-{[(10S)-10-methyloctadecanoyl]oxy}propyl alpha-D-glucopyranosiduronic acid | non-polymer | 801.1 | 1 | Chemie (SRV) | |||
| 8 | I, J, K, L (A, B, C, D) | water | water | 18.0 | 24 | Chemie (HOH) |
Sequence modifications
C: 1 - 279 (UniProt: P11609)
| PDB | External Database | Details |
|---|---|---|
| His 201 | Asp 219 | conflict |
| Gly 280 | - | expression tag |
| Ser 281 | - | expression tag |
| Leu 282 | - | expression tag |
| His 283 | - | expression tag |
| His 284 | - | expression tag |
| Ile 285 | - | expression tag |
| Leu 286 | - | expression tag |
| Asp 287 | - | expression tag |
| Ala 288 | - | expression tag |
| Gln 289 | - | expression tag |
| Lys 290 | - | expression tag |
| Met 291 | - | expression tag |
| Val 292 | - | expression tag |
| Trp 293 | - | expression tag |
| Asn 294 | - | expression tag |
| His 295 | - | expression tag |
| Arg 296 | - | expression tag |
| His 297 | - | expression tag |
| His 298 | - | expression tag |
| His 299 | - | expression tag |
| His 300 | - | expression tag |
| His 301 | - | expression tag |
| His 302 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 4 |
| Total formula weight | 96378.8 | |
| Branched | Number of molecules | 1 |
| Total formula weight | 424.4 | |
| Non-Polymers* | Number of molecules | 3 |
| Total formula weight | 1243.6 | |
| All* | Total formula weight | 98046.7 |
