6V7Z
Human CD1d presenting alpha-Galactosylceramide in complex with VHH nanobody 1D22
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, C (A, C) | Antigen-presenting glycoprotein CD1d | polymer | 347 | 39471.6 | 2 | UniProt (P15813) Pfam (PF16497) Pfam (PF07654) | Homo sapiens (Human) | R3G1 |
| 2 | B, D (B, D) | Beta-2-microglobulin | polymer | 100 | 11879.4 | 2 | UniProt (P61769) Pfam (PF07654) | Homo sapiens (Human) | |
| 3 | E, F (E, F) | Nanobody VHH ID22 | polymer | 118 | 12614.9 | 2 | Lama glama (llama) | ||
| 4 | G, J (G, J) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 2 | In PDB GlyTouCan (G42666HT) | |||
| 5 | H (H) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 383.3 | 1 | In PDB GlyTouCan (G90333CG) | |||
| 6 | I (I) | 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) | |||
| 7 | K (A) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 1 | Chemie (NAG) | |||
| 8 | L, R (A, C) | N-{(1S,2R,3S)-1-[(ALPHA-D-GALACTOPYRANOSYLOXY)METHYL]-2,3-DIHYDROXYHEPTADECYL}HEXACOSANAMIDE | non-polymer | 858.3 | 2 | Chemie (AGH) | |||
| 9 | M, N, T (A, E) | DI(HYDROXYETHYL)ETHER | non-polymer | 106.1 | 3 | Chemie (PEG) | |||
| 10 | O (A) | CHLORIDE ION | non-polymer | 35.5 | 1 | Chemie (CL) | |||
| 11 | P (B) | SULFATE ION | non-polymer | 96.1 | 1 | Chemie (SO4) | |||
| 12 | Q (B) | beta-D-glucopyranose | non-polymer | 180.2 | 1 | Chemie (BGC) | |||
| 13 | S (D) | SODIUM ION | non-polymer | 23.0 | 1 | Chemie (NA) | |||
| 14 | U, V, W, X, Y... (A, B, C, D, E...) | water | water | 18.0 | 64 | Chemie (HOH) |
Sequence modifications
A, C: 5 - 278 (UniProt: P15813)
A, C: 279 - 350 (PDB: 6V7Z)
B, D: 1 - 99 (UniProt: P61769)
| PDB | External Database | Details |
|---|---|---|
| Met 4 | - | initiating methionine |
B, D: 1 - 99 (UniProt: P61769)
| PDB | External Database | Details |
|---|---|---|
| Met 0 | - | initiating methionine |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 6 |
| Total formula weight | 127931.7 | |
| Branched | Number of molecules | 4 |
| Total formula weight | 1818.7 | |
| Non-Polymers* | Number of molecules | 10 |
| Total formula weight | 2590.9 | |
| All* | Total formula weight | 132341.2 |
