Research workbench
Crystal structure of active ribosome inactivating protein from maize (b-32)
Analyse Crystal structure of active ribosome inactivating protein from maize (b-32) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2PQI
- Type
- protein
- Length
- 700 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.5
- Source
- Zea mays
- Molecule
- Ribosome-inactivating protein 3
- EC
- 3.2.2.22
- UniProt
- P25891
- Pockets
- 4 · best druggability 0.76
Structure
x-ray diffraction · resolution 2.5 · 3 distinct chains · 39% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ribosome-inactivating protein 3 (EC 3.2.2.22) | protein | 238 | 39% helix, 16% strand | P25891 |
| B | Ribosome-inactivating protein 3 (EC 3.2.2.22) | protein | 235 | 38% helix, 15% strand | P25891 |
| C | Ribosome-inactivating protein 3 (EC 3.2.2.22) | protein | 227 | 39% helix, 15% strand | P25891 |
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 928 | 0.76 | 0.79 | 79 | empty |
| 2 | 1035 | 0.71 | 0.75 | 68 | empty |
| 3 | 114 | 0.45 | 0.78 | 22 | empty |
| 4 | 66 | 0.29 | 0.74 | 17 | empty |
Interfaces
3 interfaces between chains.
- B–C · 477 Ų buried · 2 hydrogen bonds · protein-protein
- A–C · 123 Ų buried · 3 hydrogen bonds · protein-protein
- A–B · 99 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 2PQI · Crystal structure of active ribosome inactivating protein from maize (B-32) · the same entry in another collection · chain A against A, TM-score 1.00
- P25891 · AlphaFold monomer V2.0 prediction for ribosome-inactivating protein 3 (P25891) · a predicted model of the same protein · chain B against A, TM-score 0.99
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 P25891
- Elsewhere: RCSB PDB 2PQI · PDBe 2PQI · UniProt P25891
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