5CDN
2.8A structure of etoposide with S.aureus DNA gyrase and DNA
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, C, R, T | DNA gyrase subunit A | polymer | 481 | 54664.2 | 4 | UniProt (Q99XG5) Pfam (PF00521) In PDB | Staphylococcus aureus | |
| 2 | B, D, S, U | DNA gyrase subunit B,DNA gyrase subunit B | polymer | 189 | 21274.2 | 4 | UniProt (P66937) Pfam (PF01751) Pfam (PF00986) In PDB | Staphylococcus aureus (strain N315) | |
| 3 | E, F, V, W | DNA (5'-D(P*GP*AP*GP*CP*GP*TP*AP**GP*GP*CP*CP*GP*TP*AP*CP*GP*CP*TP*C)-3') | polymer | 8 | 2451.6 | 4 | synthetic construct | ||
| 4 | G, O, N, P | DNA (5'-D(P*GP*AP*GP*CP*GP*TP*AP*C*GP*GP*CP*CP*GP*TP*AP*CP*GP*CP*TP*C)-3') | polymer | 12 | 3639.4 | 4 | synthetic construct | ||
| 5 | A | SULFATE ION | non-polymer | 96.1 | 1 | Chemie (SO4) | |||
| 6 | U, B, D, S | MANGANESE (II) ION | non-polymer | 54.9 | 4 | Chemie (MN) | |||
| 7 | T, C, E | GLYCEROL | non-polymer | 92.1 | 4 | Chemie (GOL) | |||
| 8 | C | SODIUM ION | non-polymer | 23.0 | 1 | Chemie (NA) | |||
| 9 | N, P, G, O | (5S,5aR,8aR,9R)-9-(4-hydroxy-3,5-dimethoxyphenyl)-8-oxo-5,5a,6,8,8a,9-hexahydrofuro[3',4':6,7]naphtho[2,3-d][1,3]dioxol -5-yl 4,6-O-[(1R)-ethylidene]-beta-D-glucopyranoside | non-polymer | 588.6 | 4 | Chemie (EVP) | |||
| 10 | water | water | 18.0 | 412 | Chemie (HOH) |
Sequence modifications
B, D, S, U: 417 - 543 (UniProt: P66937)
B, D, S, U: 580 - 639 (UniProt: P66937)
B, D, S, U: 580 - 639 (UniProt: P66937)
| PDB | External Database | Details |
|---|---|---|
| Thr 544 | - | linker |
| Gly 545 | - | linker |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 16 |
| Total formula weight | 328117.6 | |
| Non-Polymers* | Number of molecules | 14 |
| Total formula weight | 3061.4 | |
| All* | Total formula weight | 331179.1 |
