Research workbench
Crystal structure of a RAVER1 PRI3 peptide in complex with polypyrimidine tract binding protein RRM2
Analyse Crystal structure of a RAVER1 PRI3 peptide in complex with polypyrimidine tract… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3ZZY
- Type
- protein
- Length
- 226 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Polypyrimidine tract-binding protein 1; Ribonucleoprotein ptb-binding 1
- UniProt
- P26599, Q9CW46
- Pockets
- 2 · best druggability 0.52
Structure
x-ray diffraction · 3 distinct chains · 19% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Polypyrimidine tract-binding protein 1 | protein | 106 | 18% helix, 36% strand | P26599 |
| B | Polypyrimidine tract-binding protein 1 | protein | 104 | 21% helix, 37% strand | P26599 |
| C, D | Ribonucleoprotein ptb-binding 1 | protein | 8 | 0% helix, 0% strand | Q9CW46 |
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 | 167 | 0.52 | 0.78 | 28 | empty |
| 2 | 137 | 0.40 | 0.74 | 25 | empty |
Interfaces
5 interfaces between chains.
- A–B · 461 Ų buried · 6 hydrogen bonds · protein-protein
- A–C · 443 Ų buried · 8 hydrogen bonds · protein-protein
- B–D · 429 Ų buried · 8 hydrogen bonds · protein-protein
- A–D · 167 Ų buried · 3 hydrogen bonds · protein-protein
- B–C · 45 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 3ZZY · Crystal structure of a Raver1 PRI3 peptide in complex with polypyrimidine tract binding… · the same entry in another collection · chain A against A, TM-score 1.00
- P26599 · AlphaFold monomer V2.0 prediction for polypyrimidine tract-binding protein 1 (P26599) · a predicted model of the same protein · chain B against A, TM-score 0.98
- Q9CW46 · AlphaFold monomer V2.0 prediction for ribonucleoprotein ptb-binding 1 (Q9CW46) · a predicted model of the same protein · chain C against A, TM-score 0.48
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 P26599
- Every structure of UniProt Q9CW46
- Elsewhere: RCSB PDB 3ZZY · PDBe 3ZZY · UniProt P26599 · UniProt Q9CW46
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