Research workbench
Second tpr of spaghetti (RPAP3) bound to HSP90 peptide srmeevd
Analyse Second tpr of spaghetti (RPAP3) bound to HSP90 peptide srmeevd in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4CGW
- Type
- protein
- Length
- 235 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA polymerase II-associated protein 3; Heat shock protein HSP 90-alpha
- UniProt
- Q9H6T3, P07900
- Pockets
- 2 · best druggability 0.50
Structure
x-ray diffraction · 4 distinct chains · 74% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RNA polymerase II-associated protein 3 | protein | 115 | 81% helix, 0% strand | Q9H6T3 |
| B | RNA polymerase II-associated protein 3 | protein | 108 | 75% helix, 0% strand | Q9H6T3 |
| C | Heat shock protein HSP 90-alpha | protein | 7 | 0% helix, 0% strand | P07900 |
| D | Heat shock protein HSP 90-alpha | protein | 5 | 0% helix, 0% strand | P07900 |
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 246 | 0.50 | 0.75 | 28 | empty |
| 2 | 60 | 0.31 | 0.75 | 16 | empty |
Interfaces
3 interfaces between chains.
- A–C · 404 Ų buried · 11 hydrogen bonds · protein-protein
- B–D · 300 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 222 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 4CGW · Second TPR of Spaghetti (RPAP3) bound to HSP90 peptide SRMEEVD · the same entry in another collection · chain A against A, TM-score 1.00
- Q9H6T3 · AlphaFold monomer V2.0 prediction for RNA polymerase II-associated protein 3 (Q9H6T3) · a predicted model of the same protein · chain B against A, TM-score 0.93
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 Q9H6T3
- Every structure of UniProt P07900
- Elsewhere: RCSB PDB 4CGW · PDBe 4CGW · UniProt Q9H6T3 · UniProt P07900
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