Research workbench
Phenylalanine ammonia-lyase (pal) from sorghum bicolor
Analyse Phenylalanine ammonia-lyase (pal) from sorghum bicolor in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6AT7
- Type
- protein
- Length
- 1,364 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Phenylalanine ammonia-lyase
- EC
- 4.3.1.24
- UniProt
- C5XXT8
- Ligands
- NH4
- Pockets
- 20 · best druggability 0.84
Structure
x-ray diffraction · 2 distinct chains · 59% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Phenylalanine ammonia-lyase (EC 4.3.1.24) | protein | 692 | 60% helix, 4% strand | C5XXT8 |
| B | Phenylalanine ammonia-lyase (EC 4.3.1.24) | protein | 672 | 59% helix, 4% strand | C5XXT8 |
Ligands and binding sites
- NH4 · Ammonium ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 266 | 0.84 | 0.95 | 36 | empty |
| 2 | 643 | 0.71 | 0.78 | 57 | empty |
| 3 | 628 | 0.67 | 0.76 | 58 | empty |
| 4 | 340 | 0.61 | 0.77 | 34 | empty |
| 5 | 356 | 0.60 | 0.77 | 39 | empty |
Interfaces
1 interface between chains.
- A–B · 4763 Ų buried · 55 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (nonstandard).
Compared structures
- 6AT7 · Phenylalanine Ammonia-Lyase (PAL) from Sorghum bicolor · 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 C5XXT8
- Elsewhere: RCSB PDB 6AT7 · PDBe 6AT7 · UniProt C5XXT8
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