Research workbench
Structure of the dsdna bacteriophage HK97 mature empty capsid
Analyse Structure of the dsdna bacteriophage HK97 mature empty capsid in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1OHG
- Type
- protein
- Length
- 1,960 residues
- Chains
- 7
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Major capsid protein
- UniProt
- P49861
- Ligands
- SO4, CL
- Pockets
- 20 · best druggability 0.57
Structure
x-ray diffraction · 1 distinct chain · 25% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G | Major capsid protein | protein | 280 | 25% helix, 35% strand | P49861 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 255 | 0.57 | 0.78 | 28 | empty |
| 2 | 252 | 0.57 | 0.78 | 27 | empty |
| 3 | 269 | 0.57 | 0.77 | 27 | empty |
| 4 | 262 | 0.56 | 0.77 | 27 | empty |
| 5 | 278 | 0.56 | 0.77 | 28 | empty |
Interfaces
14 interfaces between chains.
- C–D · 2478 Ų buried · 37 hydrogen bonds · protein-protein
- A–F · 2474 Ų buried · 37 hydrogen bonds · protein-protein
- B–C · 2467 Ų buried · 37 hydrogen bonds · protein-protein
- E–F · 2452 Ų buried · 38 hydrogen bonds · protein-protein
- D–E · 2446 Ų buried · 39 hydrogen bonds · protein-protein
Compared structures
- 1OHG · Structure of the dsdna bacteriophage HK97 mature empty capsid · 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 P49861
- Elsewhere: RCSB PDB 1OHG · PDBe 1OHG · UniProt P49861
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