Research workbench
Crystal structure of the complex between the human rhoa and the DH/PH domain of human ARHGEF11
Analyse Crystal structure of the complex between the human rhoa and the DH/PH domain of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5JHG
- Type
- protein
- Length
- 1,070 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Rho guanine nucleotide exchange factor 11; Transforming protein rhoa
- UniProt
- O15085, P61586
- Pockets
- 9 · best druggability 0.74
Structure
x-ray diffraction · 3 distinct chains · 54% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Rho guanine nucleotide exchange factor 11 | protein | 356 | 58% helix, 13% strand | O15085 |
| B, F | Transforming protein rhoa | protein | 178 | 38% helix, 22% strand | P61586 |
| E | Rho guanine nucleotide exchange factor 11 | protein | 358 | 57% helix, 15% strand | O15085 |
Ligands and binding sites
- GOL · Glycerol · additive · 4 copies · chains A, B, E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 734 | 0.74 | 0.79 | 62 | GOL |
| 2 | 667 | 0.72 | 0.79 | 65 | empty |
| 3 | 73 | 0.71 | 0.97 | 21 | empty |
| 4 | 436 | 0.69 | 0.80 | 42 | empty |
| 5 | 309 | 0.57 | 0.76 | 39 | GOL |
Interfaces
3 interfaces between chains.
- E–F · 1680 Ų buried · 28 hydrogen bonds · protein-protein
- A–B · 1658 Ų buried · 24 hydrogen bonds · protein-protein
- A–E · 769 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 5JHG · Crystal structure of the complex between the human RhoA and the DH/PH domain of human… · the same entry in another collection · chain A against A, TM-score 1.00
- O15085 · AlphaFold monomer V2.0 prediction for rho guanine nucleotide exchange factor 11 (O15085) · a predicted model of the same protein · chain A against A, TM-score 0.94
- P61586 · AlphaFold monomer V2.0 prediction for transforming protein rhoa (P61586) · a predicted model of the same protein · chain B against A, TM-score 0.94
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 O15085
- Every structure of UniProt P61586
- Elsewhere: RCSB PDB 5JHG · PDBe 5JHG · UniProt O15085 · UniProt P61586
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