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) PubChem (22178808) PubChem (21148162) PubChem (44567800) PubChem (44567801) PubChem (44567802) PubChem (24893977) PubChem (46782034) PubChem (44297456) PubChem (44567799) PubChem (57484594) PubChem (53386145) PubChem (57874564) PubChem (58619337) PubChem (67145682) PubChem (68150680) PubChem (67742136) PubChem (69295696) PubChem (73352931) PubChem (2826713) PubChem (3036154) PubChem (89974087) PubChem (71012806) PubChem (90914245) PubChem (89975850) PubChem (90284806) PubChem (90977498) PubChem (101712282) PubChem (117649187) PubChem (101580079) PubChem (9919092) PubChem (126544764) PubChem (135151829) PubChem (15297626) PubChem (136212762) PubChem (164041029) PubChem (145716231) PubChem (145716904) PubChem (145731812) PubChem (172946534) PubChem (162959619) PubChem (172491662) PubChem (172909643) | |||
| 9 | J, K, L, M, R (A, B) | CHLORIDE ION | non-polymer | 35.5 | 5 | Chemie (CL) PubChem (312) | |||
| 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 |
