3U0P
Crystal structure of human CD1d-lysophosphatidylcholine
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, C, E (A, C, E) | Antigen-presenting glycoprotein CD1d | polymer | 284 | 32408.5 | 3 | UniProt (P15813) Pfam (PF16497) Pfam (PF07654) | Homo sapiens (human) | R3G1 |
| 2 | B, D, F (B, D, F) | Beta-2-microglobulin | polymer | 102 | 12031.4 | 3 | UniProt (P61769) Pfam (PF07654) | Homo sapiens (human) | Beta-2-microglobulin form pI 5.3 |
| 3 | G (G) | alpha-L-fucopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)][alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 716.7 | 1 | In PDB GlyTouCan (G63564LA) | |||
| 4 | H (H) | alpha-L-fucopyranose-(1-3)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 513.5 | 1 | In PDB GlyTouCan (G04836KE) | |||
| 5 | I (I) | alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 367.3 | 1 | In PDB GlyTouCan (G86851RC) | |||
| 6 | J, T (A, C) | (4R,7R,18E)-4,7-dihydroxy-N,N,N-trimethyl-10-oxo-3,5,9-trioxa-4-phosphaheptacos-18-en-1-aminium 4-oxide | non-polymer | 522.7 | 2 | Chemie (LSC) | |||
| 7 | K (A) | HEXANE | non-polymer | 86.2 | 1 | Chemie (HEX) | |||
| 8 | AA, CA, FA, L, M... (D, F, A, C) | SULFATE ION | non-polymer | 96.1 | 11 | Chemie (SO4) | |||
| 9 | BA, DA, O, P, R... (D, A, B, C) | GLYCEROL | non-polymer | 92.1 | 7 | Chemie (GOL) | |||
| 10 | Q (A) | UNDECANE | non-polymer | 156.3 | 1 | Chemie (UND) | |||
| 11 | EA (E) | N-BUTANE | non-polymer | 58.1 | 1 | Chemie (NBU) | |||
| 12 | GA, HA, IA, JA, KA... (A, B, C, D, E...) | water | water | 18.0 | 129 | Chemie (HOH) |
Sequence modifications
A, C, E: 3 - 277 (UniProt: P15813)
B, D, F: 1 - 99 (UniProt: P61769)
| PDB | External Database | Details |
|---|---|---|
| Ala 0 | - | expression tag |
| Asp 1 | - | expression tag |
| Pro 2 | - | expression tag |
| Gln 42 | Asn 60 | engineered mutation |
| Gln 108 | Asn 126 | engineered mutation |
| Gln 163 | Asn 181 | engineered mutation |
| His 278 | - | expression tag |
| His 279 | - | expression tag |
| His 280 | - | expression tag |
| His 281 | - | expression tag |
| His 282 | - | expression tag |
| His 283 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Ala -2 | - | expression tag |
| Asp -1 | - | expression tag |
| Pro 0 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 6 |
| Total formula weight | 133319.8 | |
| Branched | Number of molecules | 3 |
| Total formula weight | 1597.5 | |
| Non-Polymers* | Number of molecules | 23 |
| Total formula weight | 3047.3 | |
| All* | Total formula weight | 137964.6 |
