Research workbench
Crystal structure of phosphorylated pig heart, GTP-specific succinyl- CoA synthetase
Analyse Crystal structure of phosphorylated pig heart, GTP-specific succinyl- CoA… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1EUD
- Type
- protein
- Length
- 701 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Succinyl-CoA synthetase, alpha chain; Succinyl-CoA synthetase, beta chain
- EC
- 6.2.1.4
- UniProt
- P53590
- Ligands
- SO4
- Pockets
- 4 · best druggability 0.79
Structure
x-ray diffraction · 2 distinct chains · 38% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Succinyl-CoA synthetase, alpha chain (EC 6.2.1.4) | protein | 306 | 37% helix, 22% strand | — |
| B | Succinyl-CoA synthetase, beta chain (EC 6.2.1.4) | protein | 395 | 38% helix, 25% strand | P53590 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 2 copies · chains B, A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1075 | 0.79 | 0.81 | 105 | SO4 |
| 2 | 160 | 0.56 | 0.82 | 28 | empty |
| 3 | 200 | 0.51 | 0.77 | 22 | SO4 |
| 4 | 57 | 0.29 | 0.74 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 2213 Ų buried · 32 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 modified (artifact, oxidation, phosphorylation).
Compared structures
- 1EUD · Crystal structure of phosphorylated pig heart, GTP-specific succinyl-CoA synthetase · the same entry in another collection · chain A against A, TM-score 1.00
- P53590 · AlphaFold monomer V2.0 prediction for succinate--CoA ligase [GDP- forming] subunit beta… · a predicted model of the same protein · chain B against A, TM-score 0.89
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 P53590
- Elsewhere: RCSB PDB 1EUD · PDBe 1EUD · UniProt P53590
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.