MolNFT v1 · #141593 · protein
Crystal structure of OSPP2C50 I267L:OSPYL/RCAR3 with (+)-aba
5ZCL · Probable protein phosphatase 2C 50: “Crystal structure of OSPP2C50 I267L:OSPYL/RCAR3 with (+)-aba”. X-ray diffraction, 2 ligands (A8S, MG), 11 pockets (best druggability 0.85). MolNFT v1 #141593 on GenesisL1: 3D structure, binding…
- PDB
- 5ZCL
- Type
- protein
- Length
- 940 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Probable protein phosphatase 2C 50; Aba receptor RCAR3
- EC
- 3.1.3.16
- UniProt
- Q6L5H6, K4N2F7
- Ligands
- A8S, MG
- Pockets
- 11 · best druggability 0.85
Structure
x-ray diffraction · 4 distinct chains · 31% helix, 33% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Probable protein phosphatase 2C 50 (EC 3.1.3.16) | protein | 312 | 34% helix, 29% strand | Q6L5H6 |
| C | Aba receptor RCAR3 | protein | 158 | 23% helix, 41% strand | K4N2F7 |
| B | Probable protein phosphatase 2C 50 (EC 3.1.3.16) | protein | 307 | 34% helix, 30% strand | Q6L5H6 |
| D | Aba receptor RCAR3 | protein | 163 | 25% helix, 40% strand | K4N2F7 |
Ligands and binding sites
- A8S · (2Z,4E)-5-[(1S)-1-hydroxy-2,6,6-trimethyl-4-oxocyclohex-2-en-1-yl]-3-methylpenta-2,4-dienoic acid · ligand · 2 copies · chains C, D
- MG · Magnesium ion · metal · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 252 | 0.85 | 0.97 | 41 | A8S |
| 2 | 249 | 0.84 | 0.96 | 40 | A8S |
| 3 | 961 | 0.72 | 0.76 | 58 | MG |
| 4 | 682 | 0.71 | 0.79 | 65 | MG |
| 5 | 206 | 0.54 | 0.78 | 33 | empty |
Interfaces
6 interfaces between chains.
- A–C · 938 Ų buried · 9 hydrogen bonds · protein-protein
- B–D · 915 Ų buried · 10 hydrogen bonds · protein-protein
- C–D · 469 Ų buried · 8 hydrogen bonds · protein-protein
- A–B · 461 Ų buried · 3 hydrogen bonds · protein-protein
- C–B · 44 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
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 Q6L5H6
- Every structure of UniProt K4N2F7
- Elsewhere: RCSB PDB 5ZCL · PDBe 5ZCL · UniProt Q6L5H6 · UniProt K4N2F7
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