6V7Y
Human CD1d presenting alpha-Galactosylceramide in complex with VHH nanobody 1D5
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | Antigen-presenting glycoprotein CD1d | polymer | 347 | 39471.6 | 1 | UniProt (P15813) Pfam (PF16497) Pfam (PF07654) | Homo sapiens (Human) | R3G1 |
| 2 | B (B) | Beta-2-microglobulin | polymer | 100 | 11879.4 | 1 | UniProt (P61769) Pfam (PF07654) | Homo sapiens (Human) | |
| 3 | C (F) | Nanobody VHH ID5 | polymer | 127 | 13786.5 | 1 | Lama glama (llama) | ||
| 4 | D (C) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 1 | In PDB GlyTouCan (G42666HT) | |||
| 5 | E (D) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 1 | In PDB GlyTouCan (G15407YE) | |||
| 6 | F, I (A) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 2 | Chemie (NAG) | |||
| 7 | G, N, O, P, Q (A, B) | SULFATE ION | non-polymer | 96.1 | 5 | Chemie (SO4) | |||
| 8 | H (A) | N-{(1S,2R,3S)-1-[(ALPHA-D-GALACTOPYRANOSYLOXY)METHYL]-2,3-DIHYDROXYHEPTADECYL}HEXACOSANAMIDE | non-polymer | 858.3 | 1 | Chemie (AGH) | |||
| 9 | J, K, L, M, R (A, B) | CHLORIDE ION | non-polymer | 35.5 | 5 | Chemie (CL) | |||
| 10 | S, T, U (A, B, F) | water | water | 18.0 | 194 | Chemie (HOH) |
Sequence modifications
A: 2 - 275 (UniProt: P15813)
A: 276 - 347 (PDB: 6V7Y)
B: 1 - 99 (UniProt: P61769)
| PDB | External Database | Details |
|---|---|---|
| Met 1 | - | initiating methionine |
B: 1 - 99 (UniProt: P61769)
| PDB | External Database | Details |
|---|---|---|
| Met 0 | - | initiating methionine |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 3 |
| Total formula weight | 65137.5 | |
| Branched | Number of molecules | 2 |
| Total formula weight | 1010.9 | |
| Non-Polymers* | Number of molecules | 13 |
| Total formula weight | 1958.3 | |
| All* | Total formula weight | 68106.7 |
