Research workbench
Crystal structure of a tyrosine decarboxylase from enterococcus faecalis
Analyse Crystal structure of a tyrosine decarboxylase from enterococcus faecalis in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7CWX
- Type
- protein
- Length
- 1,784 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Decarboxylase
- EC
- 4.1.1.86
- UniProt
- Q8KXD2
- Pockets
- 16 · best druggability 0.78
Structure
x-ray diffraction · 3 distinct chains · 51% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Decarboxylase (EC 4.1.1.86) | protein | 601 | 52% helix, 14% strand | Q8KXD2 |
| B | Decarboxylase (EC 4.1.1.86) | protein | 601 | 50% helix, 14% strand | Q8KXD2 |
| C | Decarboxylase (EC 4.1.1.86) | protein | 582 | 51% helix, 12% strand | Q8KXD2 |
Ligands and binding sites
- PEG · Di(hydroxyethyl)ether · additive · 2 copies · chains A, B, C
- GOL · Glycerol · additive · chains B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
16 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 852 | 0.78 | 0.81 | 84 | empty |
| 2 | 722 | 0.76 | 0.81 | 57 | empty |
| 3 | 85 | 0.76 | 0.98 | 26 | empty |
| 4 | 758 | 0.65 | 0.74 | 66 | empty |
| 5 | 159 | 0.52 | 0.79 | 41 | empty |
Interfaces
2 interfaces between chains.
- B–C · 7246 Ų buried · 114 hydrogen bonds · protein-protein
- A–B · 93 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 7CWX · Crystal structure of a tyrosine decarboxylase from Enterococcus faecalis · 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 Q8KXD2
- Elsewhere: RCSB PDB 7CWX · PDBe 7CWX · UniProt Q8KXD2
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