MolNFT v1 · #111730 · protein
Structure of the arabidopsis TAP38/PPH1 in complex with PLHCB1 phosphopeptide substrate
4YZH · Protein phosphatase 2C 57: “Structure of the arabidopsis TAP38/PPH1 in complex with PLHCB1 phosphopeptide substrate”. X-ray diffraction, 1 ligand (MN), 2 pockets (best druggability 0.50). MolNFT v1 #111730 on GenesisL1: 3D…
- PDB
- 4YZH
- Type
- protein
- Length
- 304 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein phosphatase 2C 57; Chlorophyll a-B binding protein 2, chloroplastic
- EC
- 3.1.3.16
- UniProt
- P49599, P0CJ48
- Ligands
- MN
- Pockets
- 2 · best druggability 0.50
Structure
x-ray diffraction · 2 distinct chains · 35% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein phosphatase 2C 57 (EC 3.1.3.16) | protein | 294 | 36% helix, 28% strand | P49599 |
| B | Chlorophyll a-B binding protein 2, chloroplastic | protein | 10 | 0% helix, 0% strand | P0CJ48 |
Ligands and binding sites
- MN · Manganese (II) ion · metal · 2 copies · chains A, B
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 | 131 | 0.50 | 0.80 | 24 | empty |
| 2 | 59 | 0.29 | 0.75 | 11 | empty |
Interfaces
1 interface between chains.
- A–B · 776 Ų buried · 16 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 modified (phosphorylation).
Compared structures
- 4YZH · Structure of the Arabidopsis TAP38/PPH1 in complex with pLhcb1 phosphopeptide substrate · the same entry in another collection · chain A against A, TM-score 1.00
- P49599 · AlphaFold monomer V2.0 prediction for protein phosphatase 2C 57 (P49599) · a predicted model of the same protein · chain A against A, TM-score 0.98
- P0CJ48 · AlphaFold monomer V2.0 prediction for chlorophyll a-B binding protein 2, chloroplastic… · a predicted model of the same protein · chain B against A, TM-score 0.32
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 P49599
- Every structure of UniProt P0CJ48
- Elsewhere: RCSB PDB 4YZH · PDBe 4YZH · UniProt P49599 · UniProt P0CJ48
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