Research workbench
Generating ligand binding sites in T4 lysozyme using deficiency- creating substitutions
Analyse Generating ligand binding sites in T4 lysozyme using deficiency- creating… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 225L
- Type
- protein
- Length
- 162 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- T4 lysozyme
- EC
- 3.2.1.17
- UniProt
- P00720
- Ligands
- PXY
- Pockets
- 2 · best druggability 0.70
Structure
x-ray diffraction · 1 distinct chain · 65% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | T4 lysozyme (EC 3.2.1.17) | protein | 162 | 65% helix, 9% strand | P00720 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 51 | 0.70 | 0.98 | 16 | PXY |
| 2 | 245 | 0.51 | 0.75 | 29 | empty |
Modifications
Observed in the structure: 1 covalent (additive adduct).
Compared structures
- 225L · Generating ligand binding sites in T4 lysozyme using deficiency-creating substitutions · 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 P00720
- Elsewhere: RCSB PDB 225L · PDBe 225L · UniProt P00720
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