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Structures of tcdb in complex with CDC42
Analyse Structures of tcdb in complex with CDC42 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7S0Y
- Type
- protein
- Length
- 722 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Toxin B; Cell division control protein 42 homolog
- EC
- 3.4.22.-, 3.6.5.2
- UniProt
- P18177, P60953
- Ligands
- UDP, GDP, MN, MG, SO4
- Pockets
- 3 · best druggability 0.86
Structure
x-ray diffraction · 2 distinct chains · 52% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Toxin B (EC 3.4.22.-) | protein | 542 | 57% helix, 8% strand | P18177 |
| B | Cell division control protein 42 homolog (EC 3.6.5.2) | protein | 180 | 37% helix, 22% strand | P60953 |
Ligands and binding sites
- UDP · Uridine-5'-diphosphate · ligand · chains A, B
- GDP · Guanosine-5'-diphosphate · ligand · chains B
- MN · Manganese (II) ion · metal · chains A
- MG · Magnesium ion · metal · chains A, B
- SO4 · Sulfate ion · ion · 11 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1063 | 0.86 | 0.87 | 130 | MN, UDP, GDP, MG, SO4 |
| 2 | 260 | 0.66 | 0.83 | 43 | SO4 |
| 3 | 112 | 0.35 | 0.73 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 1674 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
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 P18177
- Every structure of UniProt P60953
- Elsewhere: RCSB PDB 7S0Y · PDBe 7S0Y · UniProt P18177 · UniProt P60953
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