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GTPase mechanism of gproteins from the 1.7-ångström crystal structure of transducin alpha-GDP-ALF4-
Analyse GTPase mechanism of gproteins from the 1.7-ångström crystal structure of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1TAD
- Type
- protein
- Length
- 950 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transducin-alpha
- UniProt
- P04695
- Ligands
- ALF, GDP, CA
- Pockets
- 9 · best druggability 0.76
Structure
x-ray diffraction · 2 distinct chains · 51% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Transducin-alpha | protein | 316 | 51% helix, 13% strand | P04695 |
| C | Transducin-alpha | protein | 318 | 51% helix, 14% strand | P04695 |
Ligands and binding sites
- ALF · Tetrafluoroaluminate ion · ligand · 3 copies · chains A, B, C
- GDP · Guanosine-5'-diphosphate · ligand · 3 copies · chains A, B, C
- CA · Calcium ion · metal · 3 copies · chains A, B, C
- CAC · Cacodylate ion · additive · 6 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1145 | 0.76 | 0.78 | 104 | CA, ALF, GDP |
| 2 | 459 | 0.74 | 0.84 | 67 | CA, ALF, GDP |
| 3 | 413 | 0.74 | 0.84 | 59 | CA, ALF, GDP |
| 4 | 609 | 0.67 | 0.76 | 47 | CAC |
| 5 | 73 | 0.58 | 0.89 | 29 | empty |
Interfaces
3 interfaces between chains.
- A–C · 430 Ų buried · 4 hydrogen bonds · protein-protein
- A–B · 405 Ų buried · 5 hydrogen bonds · protein-protein
- B–C · 37 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 1TAD · GTPase mechanism of gproteins from the 1.7-ångström crystal structure of transducin… · the same entry in another collection · chain A against A, TM-score 1.00
- P04695 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(T) subunit… · 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 P04695
- Elsewhere: RCSB PDB 1TAD · PDBe 1TAD · UniProt P04695
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