Research workbench
Crystal structure of PCNA in complex with DNA polymerase eta fragment
Analyse Crystal structure of PCNA in complex with DNA polymerase eta fragment in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2ZVK
- Type
- protein
- Length
- 777 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Proliferating cell nuclear antigen; DNA polymerase eta
- EC
- 2.7.7.7
- UniProt
- P12004
- Pockets
- 2 · best druggability 0.41
Structure
x-ray diffraction · 6 distinct chains · 18% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Proliferating cell nuclear antigen | protein | 246 | 19% helix, 47% strand | P12004 |
| U | DNA polymerase eta (EC 2.7.7.7) | protein | 20 | 15% helix, 10% strand | — |
| B | Proliferating cell nuclear antigen | protein | 243 | 18% helix, 45% strand | P12004 |
| V | DNA polymerase eta (EC 2.7.7.7) | protein | 10 | 0% helix, 10% strand | — |
| C | Proliferating cell nuclear antigen | protein | 247 | 19% helix, 47% strand | P12004 |
| W | DNA polymerase eta (EC 2.7.7.7) | protein | 11 | 27% helix, 9% strand | — |
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 104 | 0.41 | 0.77 | 23 | empty |
| 2 | 63 | 0.30 | 0.75 | 17 | empty |
Interfaces
6 interfaces between chains.
- A–U · 752 Ų buried · 8 hydrogen bonds · protein-protein
- A–C · 733 Ų buried · 14 hydrogen bonds · protein-protein
- A–B · 717 Ų buried · 10 hydrogen bonds · protein-protein
- C–W · 710 Ų buried · 5 hydrogen bonds · protein-protein
- B–C · 639 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 2ZVK · Crystal structure of PCNA in complex with DNA polymerase eta fragment · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P12004
- Elsewhere: RCSB PDB 2ZVK · PDBe 2ZVK · UniProt P12004
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