Research workbench
Repacking of the core of T4 lysozyme by automated design
Analyse Repacking of the core of T4 lysozyme by automated design in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1PQK
- Type
- protein
- Length
- 492 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Lysozyme
- EC
- 3.2.1.17
- UniProt
- P00720
- Pockets
- 7 · best druggability 0.79
Structure
x-ray diffraction · 1 distinct chain · 64% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Lysozyme (EC 3.2.1.17) | protein | 164 | 64% helix, 8% strand | P00720 |
Pockets
7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 140 | 0.79 | 0.96 | 27 | empty |
| 2 | 780 | 0.74 | 0.79 | 59 | empty |
| 3 | 224 | 0.59 | 0.80 | 36 | empty |
| 4 | 225 | 0.52 | 0.76 | 31 | empty |
| 5 | 91 | 0.40 | 0.77 | 22 | empty |
Interfaces
2 interfaces between chains.
- A–B · 785 Ų buried · 9 hydrogen bonds · protein-protein
- A–C · 726 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 1PQK · Repacking of the Core of T4 Lysozyme by Automated Design · 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 1PQK · PDBe 1PQK · UniProt P00720
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