Research workbench
Crystal structure of the dbl and pleckstrin homology domains of dbs in complex with rhoa
Analyse Crystal structure of the dbl and pleckstrin homology domains of dbs in complex… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1LB1
- Type
- protein
- Length
- 2,008 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Guanine nucleotide exchange factor dbs; Transforming protein rhoa
- UniProt
- Q64096, P61586
- Pockets
- 20 · best druggability 0.61
Structure
x-ray diffraction · 2 distinct chains · 51% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G | Guanine nucleotide exchange factor dbs | protein | 324 | 58% helix, 17% strand | Q64096 |
| B, D, F, H | Transforming protein rhoa | protein | 178 | 38% helix, 22% strand | P61586 |
Pockets
20 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 459 | 0.61 | 0.75 | 36 | empty |
| 2 | 462 | 0.61 | 0.75 | 35 | empty |
| 3 | 474 | 0.61 | 0.75 | 36 | empty |
| 4 | 309 | 0.59 | 0.77 | 36 | empty |
| 5 | 199 | 0.59 | 0.81 | 29 | empty |
Interfaces
6 interfaces between chains.
- E–F · 1712 Ų buried · 21 hydrogen bonds · protein-protein
- C–D · 1706 Ų buried · 19 hydrogen bonds · protein-protein
- G–H · 1706 Ų buried · 21 hydrogen bonds · protein-protein
- A–B · 1692 Ų buried · 19 hydrogen bonds · protein-protein
- C–E · 571 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 1LB1 · Crystal Structure of the Dbl and Pleckstrin homology domains of Dbs in complex with RhoA · the same entry in another collection · chain H against H, TM-score 1.00
- Q64096 · AlphaFold monomer V2.0 prediction for guanine nucleotide exchange factor dbs (Q64096) · a predicted model of the same protein · chain A against A, TM-score 0.98
- 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 Q64096
- Every structure of UniProt P61586
- Elsewhere: RCSB PDB 1LB1 · PDBe 1LB1 · UniProt Q64096 · UniProt P61586
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