Research workbench
Crystal structure of pig muscle phosphoglycerate kinase ternary complex with AMP-pcp and 3PG
Analyse Crystal structure of pig muscle phosphoglycerate kinase ternary complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1KF0
- Type
- protein
- Length
- 416 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Phosphoglycerate kinase
- EC
- 2.7.2.3
- UniProt
- Q7SIB7
- Ligands
- 3PG, ACP, MG
- Pockets
- 2 · best druggability 0.61
Structure
x-ray diffraction · 1 distinct chain · 38% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Phosphoglycerate kinase (EC 2.7.2.3) | protein | 416 | 38% helix, 17% strand | Q7SIB7 |
Ligands and binding sites
- 3PG · 3-phosphoglyceric acid · ligand · chains A
- ACP · Phosphomethylphosphonic acid adenylate ester · 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
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 406 | 0.61 | 0.77 | 71 | 3PG, ACP |
| 2 | 60 | 0.32 | 0.76 | 15 | empty |
Compared structures
- 1KF0 · Crystal Structure of Pig Muscle Phosphoglycerate Kinase Ternary Complex with AMP-PCP and… · the same entry in another collection · chain A against A, TM-score 1.00
- Q7SIB7 · AlphaFold monomer V2.0 prediction for phosphoglycerate kinase 1 (Q7SIB7) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 Q7SIB7
- Elsewhere: RCSB PDB 1KF0 · PDBe 1KF0 · UniProt Q7SIB7
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