5WN2
APE1 exonuclease substrate complex with phosphoglycolate
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) | DNA-(apurinic or apyrimidinic site) lyase | polymer | 276 | 31154.5 | 2 | UniProt (P27695) Pfam (PF03372) | Homo sapiens (Human) | APEX1, APEX nuclease,APEN,Apurinic-apyrimidinic endonuclease 1, APE-1, REF-1, Redox factor-1 |
| 2 | C (C) | DNA (5'-D(P*TP*CP*GP*AP*CP*GP*GP*AP*TP*CP*C)-3') | polymer | 11 | 3334.2 | 1 | synthetic construct | ||
| 3 | D (D) | DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*G)-3') | polymer | 9 | 2771.8 | 1 | synthetic construct | ||
| 4 | E (E) | DNA (5'-D(*GP*GP*AP*TP*CP*CP*GP*TP*CP*GP*AP*CP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3') | polymer | 21 | 6409.1 | 1 | synthetic construct | ||
| 5 | F, N (A, E) | SODIUM ION | non-polymer | 23.0 | 2 | Chemie (NA) | |||
| 6 | G, H, I, J (B, C) | 1,2-ETHANEDIOL | non-polymer | 62.1 | 4 | Chemie (EDO) | |||
| 7 | K (D) | 2-PHOSPHOGLYCOLIC ACID | non-polymer | 156.0 | 1 | Chemie (PGA) | |||
| 8 | L, M (E) | CALCIUM ION | non-polymer | 40.1 | 2 | Chemie (CA) | |||
| 9 | O, P, Q, R, S (A, B, C, D, E) | water | water | 18.0 | 243 | Chemie (HOH) |
Sequence modifications
A, B: 43 - 318 (UniProt: P27695)
| PDB | External Database | Details |
|---|---|---|
| Gln 96 | Glu 96 | engineered mutation |
| Ala 138 | Cys 138 | engineered mutation |
| Asn 210 | Asp 210 | engineered mutation |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 5 |
| Total formula weight | 74824.2 | |
| Non-Polymers* | Number of molecules | 9 |
| Total formula weight | 530.4 | |
| All* | Total formula weight | 75354.6 |
