Research workbench
Crystal structure of tamalin PDZ-intrinsic ligand fusion protein
Analyse Crystal structure of tamalin PDZ-intrinsic ligand fusion protein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2EGK
- Type
- protein
- Length
- 354 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- General receptor for phosphoinositides 1-associated scaffold protein
- UniProt
- Q8R4T5
- Ligands
- PO4
- Pockets
- 3 · best druggability 0.81
Structure
x-ray diffraction · 4 distinct chains · 15% helix, 39% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | General receptor for phosphoinositides 1-associated scaffold protein | protein | 89 | 16% helix, 38% strand | Q8R4T5 |
| B | General receptor for phosphoinositides 1-associated scaffold protein | protein | 90 | 14% helix, 44% strand | Q8R4T5 |
| C | General receptor for phosphoinositides 1-associated scaffold protein | protein | 88 | 15% helix, 36% strand | Q8R4T5 |
| D | General receptor for phosphoinositides 1-associated scaffold protein | protein | 87 | 15% helix, 38% strand | Q8R4T5 |
Ligands and binding sites
- PO4 · Phosphate ion · ion · 2 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1031 | 0.81 | 0.82 | 117 | PO4 |
| 2 | 93 | 0.40 | 0.77 | 19 | empty |
| 3 | 60 | 0.29 | 0.74 | 15 | empty |
Interfaces
5 interfaces between chains.
- A–B · 1038 Ų buried · 20 hydrogen bonds · protein-protein
- C–D · 984 Ų buried · 24 hydrogen bonds · protein-protein
- A–C · 620 Ų buried · 15 hydrogen bonds · protein-protein
- B–D · 584 Ų buried · 11 hydrogen bonds · protein-protein
- B–C · 197 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 modified (engineered).
Compared structures
- 2EGK · Crystal Structure of Tamalin PDZ-Intrinsic Ligand Fusion Protein · the same entry in another collection · chain D against D, TM-score 1.00
- Q8R4T5 · AlphaFold monomer V2.0 prediction for general receptor for phosphoinositides 1-associated… · a predicted model of the same protein · chain C against A, TM-score 0.92
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 Q8R4T5
- Elsewhere: RCSB PDB 2EGK · PDBe 2EGK · UniProt Q8R4T5
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