Research workbench
Phenylalanine ammonia-lyase (pal) from petroselinum crispum
Analyse Phenylalanine ammonia-lyase (pal) from petroselinum crispum in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1W27
- Type
- protein
- Length
- 1,380 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Phenylalanine ammonia-lyase 1
- EC
- 4.3.1.5
- UniProt
- P24481
- Pockets
- 18 · best druggability 0.83
Structure
x-ray diffraction · 1 distinct chain · 57% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Phenylalanine ammonia-lyase 1 (EC 4.3.1.5) | protein | 690 | 57% helix, 4% strand | P24481 |
Ligands and binding sites
- DTT · 2,3-dihydroxy-1,4-dithiobutane · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
18 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 229 | 0.83 | 0.96 | 31 | empty |
| 2 | 459 | 0.65 | 0.78 | 60 | DTT |
| 3 | 382 | 0.62 | 0.78 | 44 | DTT |
| 4 | 305 | 0.60 | 0.78 | 40 | empty |
| 5 | 292 | 0.59 | 0.77 | 36 | empty |
Interfaces
1 interface between chains.
- A–B · 4393 Ų buried · 64 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 covalent, 2 modified (additive adduct, nonstandard).
Compared structures
- 1W27 · Phenylalanine ammonia-lyase (PAL) from Petroselinum crispum · the same entry in another collection · chain A against A, TM-score 1.00
- P24481 · AlphaFold monomer V2.0 prediction for phenylalanine ammonia-lyase 1 (P24481) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 P24481
- Elsewhere: RCSB PDB 1W27 · PDBe 1W27 · UniProt P24481
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.