Research workbench
Crystal structure of human PCNA in complex with three P15 peptides
Analyse Crystal structure of human PCNA in complex with three P15 peptides in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6GWS
- Type
- protein
- Length
- 831 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Proliferating cell nuclear antigen; PCNA-associated factor
- UniProt
- P12004, Q15004
- Pockets
- 5 · best druggability 0.46
Structure
x-ray diffraction · 4 distinct chains · 17% helix, 38% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Proliferating cell nuclear antigen | protein | 255 | 18% helix, 46% strand | P12004 |
| D | PCNA-associated factor | protein | 21 | 14% helix, 5% strand | Q15004 |
| E | PCNA-associated factor | protein | 22 | 14% helix, 9% strand | Q15004 |
| F | PCNA-associated factor | protein | 23 | 13% helix, 4% strand | Q15004 |
Pockets
5 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 121 | 0.46 | 0.78 | 20 | empty |
| 2 | 122 | 0.42 | 0.76 | 23 | empty |
| 3 | 101 | 0.42 | 0.77 | 21 | empty |
| 4 | 81 | 0.39 | 0.78 | 19 | empty |
| 5 | 53 | 0.29 | 0.76 | 17 | empty |
Interfaces
9 interfaces between chains.
- B–E · 1212 Ų buried · 13 hydrogen bonds · protein-protein
- C–D · 1188 Ų buried · 14 hydrogen bonds · protein-protein
- A–F · 1177 Ų buried · 19 hydrogen bonds · protein-protein
- A–B · 750 Ų buried · 14 hydrogen bonds · protein-protein
- A–C · 697 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 6GWS · Crystal structure of human PCNA in complex with three p15 peptides · the same entry in another collection · chain F against F, TM-score 1.00
- Q15004 · AlphaFold monomer V2.0 prediction for PCNA-associated factor (Q15004) · a predicted model of the same protein · chain F against A, TM-score 0.40
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
- Every structure of UniProt Q15004
- Elsewhere: RCSB PDB 6GWS · PDBe 6GWS · UniProt P12004 · UniProt Q15004
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