Research workbench
Crystal structure of pdzrhogef rgrgs domain in a complex with galpha- 13 bound to GTP-gamma-S
Analyse Crystal structure of pdzrhogef rgrgs domain in a complex with galpha- 13 bound… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3CX8
- Type
- protein
- Length
- 512 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Guanine nucleotide-binding protein alpha-13 subunit; Rho guanine nucleotide exchange…
- UniProt
- P27601, Q9ES67
- Ligands
- GSP, MG
- Pockets
- 5 · best druggability 0.77
Structure
x-ray diffraction · 2 distinct chains · 58% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Guanine nucleotide-binding protein alpha-13 subunit | protein | 319 | 50% helix, 13% strand | P27601 |
| B | Rho guanine nucleotide exchange factor 11 | protein | 193 | 69% helix, 0% strand | Q9ES67 |
Ligands and binding sites
- GSP · 5'-guanosine-diphosphate-monothiophosphate · ligand · chains A
- MG · Magnesium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 586 | 0.77 | 0.84 | 76 | MG, GSP |
| 2 | 153 | 0.50 | 0.78 | 26 | empty |
| 3 | 121 | 0.41 | 0.76 | 19 | empty |
| 4 | 133 | 0.40 | 0.74 | 20 | empty |
| 5 | 57 | 0.34 | 0.78 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 1542 Ų buried · 26 hydrogen bonds · protein-protein
Compared structures
- 3CX8 · Crystal Structure of PDZRhoGEF rgRGS Domain in a Complex with Galpha-13 Bound to… · the same entry in another collection · chain A against A, TM-score 1.00
- P27601 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein subunit alpha-13… · a predicted model of the same protein · chain A against A, TM-score 0.99
- Q9ES67 · AlphaFold monomer V2.0 prediction for rho guanine nucleotide exchange factor 11 (Q9ES67) · a predicted model of the same protein · chain B against A, TM-score 0.93
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 P27601
- Every structure of UniProt Q9ES67
- Elsewhere: RCSB PDB 3CX8 · PDBe 3CX8 · UniProt P27601 · UniProt Q9ES67
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.