Research workbench
Pepck mmqx structure 120MS post-mixing with oxaloacetic acid
Analyse Pepck mmqx structure 120MS post-mixing with oxaloacetic acid in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7L3V
- Type
- protein
- Length
- 601 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Phosphoenolpyruvate carboxykinase, cytosolic [GTP]
- EC
- 4.1.1.32, 2.7.11.-
- UniProt
- P07379
- Ligands
- GDP, PEP, MN, CO2
- Pockets
- 10 · best druggability 0.71
Structure
x-ray diffraction · 1 distinct chain · 31% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Phosphoenolpyruvate carboxykinase, cytosolic [GTP] (EC 4.1.1.32, 2.7.11.-) | protein | 601 | 31% helix, 23% strand | P07379 |
Ligands and binding sites
- GDP · Guanosine-5'-diphosphate · ligand · chains A
- PEP · Phosphoenolpyruvate · ligand · chains A
- MN · Manganese (II) ion · metal · 4 copies · chains A
- CO2 · Carbon dioxide · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 51 | 0.71 | 0.99 | 16 | empty |
| 2 | 424 | 0.69 | 0.81 | 58 | CO2, GDP, PEP, MN |
| 3 | 149 | 0.59 | 0.83 | 20 | empty |
| 4 | 72 | 0.50 | 0.85 | 20 | empty |
| 5 | 73 | 0.43 | 0.80 | 16 | empty |
Compared structures
- 7L3V · PEPCK MMQX structure 120ms post-mixing with oxaloacetic acid · the same entry in another collection · chain A against A, TM-score 1.00
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 P07379
- Elsewhere: RCSB PDB 7L3V · PDBe 7L3V · UniProt P07379
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