Research workbench
HRV14/SDZ 35-682 complex
Analyse HRV14/SDZ 35-682 complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1HRV
- Type
- protein
- Length
- 804 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Human rhinovirus 14 coat protein (subunit VP1); Human rhinovirus 14 coat protein (subunit…
- UniProt
- P03303
- Ligands
- SDZ
- Pockets
- 9 · best druggability 0.83
Structure
x-ray diffraction · 4 distinct chains · 12% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| 1 | Human rhinovirus 14 coat protein (subunit VP1) | protein | 273 | 10% helix, 32% strand | P03303 |
| 2 | Human rhinovirus 14 coat protein (subunit VP2) | protein | 255 | 15% helix, 37% strand | P03303 |
| 3 | Human rhinovirus 14 coat protein (subunit VP3) | protein | 236 | 9% helix, 32% strand | P03303 |
| 4 | Human rhinovirus 14 coat protein (subunit VP4) | protein | 40 | 18% helix, 3% strand | P03303 |
Ligands and binding sites
- SDZ · 1-[2-hydroxy-3-(4-cyclohexyl-phenoxy)-propyl]-4-(2-pyridyl)-piperazine · ligand · chains 1, 3
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 586 | 0.83 | 0.88 | 81 | SDZ |
| 2 | 168 | 0.46 | 0.76 | 34 | empty |
| 3 | 92 | 0.42 | 0.78 | 18 | empty |
| 4 | 110 | 0.40 | 0.76 | 21 | empty |
| 5 | 115 | 0.39 | 0.75 | 25 | empty |
Interfaces
6 interfaces between chains.
- 1–3 · 4152 Ų buried · 72 hydrogen bonds · protein-protein
- 1–2 · 2108 Ų buried · 44 hydrogen bonds · protein-protein
- 2–3 · 1705 Ų buried · 15 hydrogen bonds · protein-protein
- 1–4 · 957 Ų buried · 14 hydrogen bonds · protein-protein
- 3–4 · 898 Ų buried · 14 hydrogen bonds · protein-protein
Compared structures
- 1HRV · HRV14/SDZ 35-682 complex · the same entry in another collection · chain 1 against 1, 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 P03303
- Elsewhere: RCSB PDB 1HRV · PDBe 1HRV · UniProt P03303
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