Research workbench
Crystal structure of the mlle domain of POLY(A)-binding protein in complex with the binding region of PAIP2
Analyse Crystal structure of the mlle domain of POLY(A)-binding protein in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3KUS
- Type
- protein
- Length
- 177 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Polyadenylate-binding protein 1; PAIP2 protein
- UniProt
- P11940, Q6FID7
- Pockets
- 1 · best druggability 0.30
Structure
x-ray diffraction · 4 distinct chains · 72% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Polyadenylate-binding protein 1 | protein | 82 | 87% helix, 0% strand | P11940 |
| B | Polyadenylate-binding protein 1 | protein | 70 | 81% helix, 0% strand | P11940 |
| C | PAIP2 protein | protein | 11 | 0% helix, 0% strand | Q6FID7 |
| D | PAIP2 protein | protein | 14 | 0% helix, 0% strand | Q6FID7 |
Ligands and binding sites
- GOL · Glycerol · additive · chains A, B
- EPE · 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid · additive · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 65 | 0.30 | 0.74 | 11 | empty |
Interfaces
3 interfaces between chains.
- B–D · 722 Ų buried · 6 hydrogen bonds · protein-protein
- A–C · 638 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 509 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 3KUS · Crystal structure of the MLLE domain of poly(A)-binding protein in complex with the… · the same entry in another collection · chain D against D, TM-score 1.00
- P11940 · AlphaFold monomer V2.0 prediction for polyadenylate-binding protein 1 (P11940) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 P11940
- Every structure of UniProt Q6FID7
- Elsewhere: RCSB PDB 3KUS · PDBe 3KUS · UniProt P11940 · UniProt Q6FID7
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