Research workbench
Crystal structure of C-terminal domain of ICP27 protein from HSV-1
Analyse Crystal structure of C-terminal domain of ICP27 protein from HSV-1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5BQK
- Type
- protein
- Length
- 800 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ICP27
- UniProt
- I3TCB5
- Ligands
- ZN
- Pockets
- 10 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 63% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | ICP27 | protein | 267 | 63% helix, 1% strand | I3TCB5 |
| B | ICP27 | protein | 266 | 63% helix, 1% strand | I3TCB5 |
Ligands and binding sites
- ZN · Zinc ion · metal · 3 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 799 | 0.73 | 0.78 | 96 | empty |
| 2 | 540 | 0.71 | 0.79 | 43 | empty |
| 3 | 100 | 0.55 | 0.84 | 18 | empty |
| 4 | 159 | 0.54 | 0.80 | 34 | empty |
| 5 | 86 | 0.43 | 0.79 | 15 | empty |
Interfaces
2 interfaces between chains.
- B–C · 5477 Ų buried · 64 hydrogen bonds · protein-protein
- A–B · 589 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 15 modified (engineered).
Compared structures
- 5BQK · Crystal structure of C-terminal domain of ICP27 protein from HSV-1 · 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 I3TCB5
- Elsewhere: RCSB PDB 5BQK · PDBe 5BQK · UniProt I3TCB5
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