MolNFT v1 · #92917 · protein
Crystal structure of the ra and pH domains of lamellipodin
4GN1 · RAS-associated and pleckstrin homology domains-containing…: “Crystal structure of the ra and pH domains of lamellipodin”. X-ray diffraction, 10 pockets (best druggability 0.74). MolNFT v1 #92917 on GenesisL1: 3D structure, binding…
- PDB
- 4GN1
- Type
- protein
- Length
- 981 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RAS-associated and pleckstrin homology domains-containing protein 1
- UniProt
- Q70E73
- Pockets
- 10 · best druggability 0.74
Structure
x-ray diffraction · 3 distinct chains · 30% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RAS-associated and pleckstrin homology domains-containing protein 1 | protein | 251 | 30% helix, 28% strand | Q70E73 |
| B | RAS-associated and pleckstrin homology domains-containing protein 1 | protein | 250 | 29% helix, 29% strand | Q70E73 |
| C, D | RAS-associated and pleckstrin homology domains-containing protein 1 | protein | 240 | 32% helix, 28% strand | Q70E73 |
Ligands and binding sites
- MLI · Malonate ion · additive · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1118 | 0.74 | 0.77 | 102 | empty |
| 2 | 292 | 0.59 | 0.78 | 30 | empty |
| 3 | 279 | 0.55 | 0.76 | 35 | empty |
| 4 | 201 | 0.55 | 0.79 | 21 | empty |
| 5 | 182 | 0.51 | 0.78 | 28 | empty |
Interfaces
5 interfaces between chains.
- A–C · 749 Ų buried · 5 hydrogen bonds · protein-protein
- B–D · 740 Ų buried · 6 hydrogen bonds · protein-protein
- A–D · 386 Ų buried · 3 hydrogen bonds · protein-protein
- C–D · 167 Ų buried · 3 hydrogen bonds · protein-protein
- A–B · 158 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 4GN1 · Crystal Structure of the RA and PH domains of Lamellipodin · the same entry in another collection · chain A against A, TM-score 1.00
- Q70E73 · AlphaFold monomer V2.0 prediction for RAS-associated and pleckstrin homology… · a predicted model of the same protein · chain C 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 Q70E73
- Elsewhere: RCSB PDB 4GN1 · PDBe 4GN1 · UniProt Q70E73
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