9DJW
X-ray crystal structure of TNFa-VNAR D1 complex
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, B, BB, CB, DA... (0, 1, 5, 6, 7...) | Antigen receptor | polymer | 129 | 14080.3 | 30 | UniProt (Q8JGJ1) | Squalus acanthias (spiny dogfish) | |
| 2 | AA, AB, BA, C, CA... (2, 3, 4, A, B...) | Tumor necrosis factor | polymer | 156 | 17271.5 | 30 | UniProt (P01375) Pfam (PF00229) | Homo sapiens (human) | Cachectin,TNF-alpha,Tumor necrosis factor ligand superfamily member 2,TNF-a |
| 3 | AC, BC, CC, IB, JB... (t, z, 0, 1, 5...) | GLYCEROL | non-polymer | 92.1 | 17 | Chemie (GOL) PubChem (753) | |||
| 4 | NB, WB, ZB (P, h, t) | SULFATE ION | non-polymer | 96.1 | 3 | Chemie (SO4) | |||
| 5 | PB (S) | CHLORIDE ION | non-polymer | 35.5 | 1 | Chemie (CL) PubChem (312) | |||
| 6 | DC, EC, FC, GC, HC... (D, I, J, P, S...) | water | water | 18.0 | 9 | Chemie (HOH) |
Sequence modifications
0, 1, 5, 6, 7, D, E, F, J, K, L, P, Q, R, V, W, X, b, c, d, h, i, j, n, o, p, t, u, v, z: 0 - 106 (UniProt: Q8JGJ1)
| PDB | External Database | Details |
|---|---|---|
| His 28 | Asn 39 | conflict |
| Thr 31 | Leu 42 | conflict |
| - | Asn 95 | deletion |
| - | Val 96 | deletion |
| Ala 84 | Tyr 97 | conflict |
| Glu 86 | Trp 99 | conflict |
| Cys 87 | Tyr 100 | conflict |
| Gln 88 | Gly 101 | conflict |
| Gly 90 | Asp 103 | conflict |
| Leu 91 | Cys 104 | conflict |
| Tyr 94 | Leu 107 | conflict |
| Ala 107 | - | expression tag |
| Ala 108 | - | expression tag |
| Ala 109 | - | expression tag |
| His 110 | - | expression tag |
| His 111 | - | expression tag |
| His 112 | - | expression tag |
| His 113 | - | expression tag |
| His 114 | - | expression tag |
| His 115 | - | expression tag |
| Gly 116 | - | expression tag |
| Ala 117 | - | expression tag |
| Ala 118 | - | expression tag |
| Glu 119 | - | expression tag |
| Ser 120 | - | expression tag |
| Lys 121 | - | expression tag |
| Leu 122 | - | expression tag |
| Ile 123 | - | expression tag |
| Ser 124 | - | expression tag |
| Glu 125 | - | expression tag |
| Glu 126 | - | expression tag |
| Asp 127 | - | expression tag |
| Leu 128 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 60 |
| Total formula weight | 940554.5 | |
| Non-Polymers* | Number of molecules | 21 |
| Total formula weight | 1889.2 | |
| All* | Total formula weight | 942443.7 |
