Research workbench
Structure of liprin-ALPHA3 in complex with MDIA1 diaphanous- inhibitory domain
Analyse Structure of liprin-ALPHA3 in complex with MDIA1 diaphanous- inhibitory domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4UWX
- Type
- protein
- Length
- 495 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein diaphanous homolog 1; Liprin-alpha-3
- UniProt
- O08808, P60469
- Ligands
- NI
- Pockets
- 6 · best druggability 0.53
Structure
x-ray diffraction · 4 distinct chains · 78% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein diaphanous homolog 1 | protein | 234 | 76% helix, 0% strand | O08808 |
| B | Protein diaphanous homolog 1 | protein | 230 | 77% helix, 0% strand | O08808 |
| C | Liprin-alpha-3 | protein | 15 | 87% helix, 0% strand | P60469 |
| D | Liprin-alpha-3 | protein | 16 | 88% helix, 0% strand | P60469 |
Ligands and binding sites
- NI · Nickel (II) ion · metal · 2 copies · chains A, B
- 144 · Tris-hydroxymethyl-methyl-ammonium · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 133 | 0.53 | 0.81 | 21 | NI, 144 |
| 2 | 207 | 0.50 | 0.76 | 31 | empty |
| 3 | 91 | 0.40 | 0.77 | 16 | empty |
| 4 | 75 | 0.34 | 0.75 | 14 | empty |
| 5 | 75 | 0.33 | 0.75 | 19 | empty |
Interfaces
3 interfaces between chains.
- A–B · 776 Ų buried · 13 hydrogen bonds · protein-protein
- B–D · 642 Ų buried · 6 hydrogen bonds · protein-protein
- A–C · 602 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 4UWX · Structure of liprin-alpha3 in complex with mDia1 Diaphanous- inhibitory domain · the same entry in another collection · chain D against D, TM-score 1.00
- O08808 · AlphaFold monomer V2.0 prediction for protein diaphanous homolog 1 (O08808) · a predicted model of the same protein · chain B against A, TM-score 0.99
- P60469 · AlphaFold monomer V2.0 prediction for liprin-alpha-3 (P60469) · a predicted model of the same protein · chain C against A, TM-score 0.90
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 O08808
- Every structure of UniProt P60469
- Elsewhere: RCSB PDB 4UWX · PDBe 4UWX · UniProt O08808 · UniProt P60469
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.