MolNFT v1 · #40585 · protein
Crystal structure of the heterotrimeric PCNA from sulfolobus solfataricus
2IX2 · DNA polymerase sliding clamp B: “Crystal structure of the heterotrimeric PCNA from sulfolobus solfataricus”. X-ray diffraction, 5 pockets (best druggability 0.48). MolNFT v1 #40585 on GenesisL1: 3D structure, binding sites and…
- PDB
- 2IX2
- Type
- protein
- Length
- 712 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA polymerase sliding clamp B; DNA polymerase sliding clamp C; DNA polymerase sliding…
- UniProt
- P57766, Q97Z84, P57765
- Pockets
- 5 · best druggability 0.48
Structure
x-ray diffraction · 3 distinct chains · 21% helix, 46% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA polymerase sliding clamp B | protein | 226 | 20% helix, 47% strand | P57766 |
| B | DNA polymerase sliding clamp C | protein | 245 | 21% helix, 45% strand | Q97Z84 |
| C | DNA polymerase sliding clamp a | protein | 241 | 21% helix, 44% strand | P57765 |
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 | 69 | 0.48 | 0.84 | 20 | empty |
| 2 | 150 | 0.47 | 0.77 | 25 | empty |
| 3 | 83 | 0.41 | 0.78 | 25 | empty |
| 4 | 53 | 0.34 | 0.78 | 13 | empty |
| 5 | 63 | 0.32 | 0.76 | 19 | empty |
Interfaces
3 interfaces between chains.
- B–C · 657 Ų buried · 11 hydrogen bonds · protein-protein
- A–C · 595 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 586 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 2IX2 · Crystal structure of the heterotrimeric PCNA from Sulfolobus solfataricus · the same entry in another collection · chain A against A, TM-score 1.00
- Q97Z84 · AlphaFold monomer V2.0 prediction for DNA polymerase sliding clamp 2 (Q97Z84) · a predicted model of the same protein · chain B against A, TM-score 0.98
- P57766 · AlphaFold monomer V2.0 prediction for DNA polymerase sliding clamp 1 (P57766) · a predicted model of the same protein · chain A against A, TM-score 0.97
- P57765 · AlphaFold monomer V2.0 prediction for DNA polymerase sliding clamp 3 (P57765) · a predicted model of the same protein · chain C against A, TM-score 0.94
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 P57766
- Every structure of UniProt Q97Z84
- Every structure of UniProt P57765
- Elsewhere: RCSB PDB 2IX2 · PDBe 2IX2 · UniProt P57766 · UniProt Q97Z84 · UniProt P57765
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