7P0W
Crystal structure of a trapped Pab-AGOG/double-standed DNA covalent intermediate (DNA containing thymine opposite to lesion)
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A | N-glycosylase/DNA lyase | polymer | 242 | 27982.5 | 1 | UniProt (Q9UZY0) Pfam (PF09171) In PDB | Pyrococcus abyssi (strain GE5 / Orsay) | 8-oxoguanine DNA glycosylase,AGOG,DNA-(apurinic or apyrimidinic site) lyase,AP lyase |
| 2 | B | DNA (5'-D(*TP*TP*TP*(PED)P*TP*TP*TP*CP*T)-3') | polymer | 9 | 2555.7 | 1 | synthetic construct | ||
| 3 | I | DNA (5'-D(*AP*GP*AP*AP*AP*TP*AP*AP*A)-3') | polymer | 9 | 2780.9 | 1 | synthetic construct | ||
| 4 | A, I | (4S)-2-METHYL-2,4-PENTANEDIOL | non-polymer | 118.2 | 2 | Chemie (MPD) | |||
| 5 | A | SODIUM ION | non-polymer | 23.0 | 2 | Chemie (NA) | |||
| 6 | water | water | 18.0 | 409 | Chemie (HOH) |
Sequence modifications
A: 1 - 239 (UniProt: Q9UZY0)
| PDB | External Database | Details |
|---|---|---|
| Gly -2 | - | expression tag |
| Ser -1 | - | expression tag |
| His 0 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 3 |
| Total formula weight | 33319.1 | |
| Non-Polymers* | Number of molecules | 4 |
| Total formula weight | 282.3 | |
| All* | Total formula weight | 33601.4 |
