8D88
Structure of Y430F D-ornithine/D-lysine decarboxylase complex with D-lysine
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, B (A, B) | D-ornithine/D-lysine decarboxylase | polymer | 478 | 54118.1 | 2 | UniProt (Q8ZNC4) Pfam (PF00278) Pfam (PF02784) | Salmonella enterica subsp. enterica serovar Typhimurium | D-Orn/D-Lys decarboxylase,DOKDC |
| 2 | C, G, H, L, P... (A, B) | DIMETHYL SULFOXIDE | non-polymer | 78.1 | 6 | Chemie (DMS) | |||
| 3 | D, M (A, B) | 1,2-ETHANEDIOL | non-polymer | 62.1 | 2 | Chemie (EDO) | |||
| 4 | E (A) | PENTANE-1,5-DIAMINE | non-polymer | 102.2 | 1 | Chemie (N2P) | |||
| 5 | F, O (A, B) | N~2~-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)-D-lysine | non-polymer | 377.3 | 2 | Chemie (R1O) | |||
| 6 | I, J, R, S (A, B) | SODIUM ION | non-polymer | 23.0 | 4 | Chemie (NA) | |||
| 7 | K, T (A, B) | CHLORIDE ION | non-polymer | 35.5 | 2 | Chemie (CL) | |||
| 8 | N (B) | GLYCEROL | non-polymer | 92.1 | 1 | Chemie (GOL) | |||
| 9 | U, V (A, B) | water | water | 18.0 | 1012 | Chemie (HOH) |
Sequence modifications
A, B: 1 - 465 (UniProt: Q8ZNC4)
| PDB | External Database | Details |
|---|---|---|
| Phe 430 | Tyr 430 | engineered mutation |
| Leu 466 | - | expression tag |
| Ala 478 | - | expression tag |
| Ala 479 | - | expression tag |
| Ala 480 | - | expression tag |
| Leu 481 | - | expression tag |
| Glu 482 | - | expression tag |
| His 483 | - | expression tag |
| His 484 | - | expression tag |
| His 485 | - | expression tag |
| His 486 | - | expression tag |
| His 487 | - | expression tag |
| His 488 | - | expression tag |
| Ala 489 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 2 |
| Total formula weight | 108236.1 | |
| Non-Polymers* | Number of molecules | 18 |
| Total formula weight | 1704.7 | |
| All* | Total formula weight | 109940.9 |
