Research workbench
X-ray snapshot of HIV-1 protease in action: observation of tetrahedral intermediate and its sihb with catalytic aspartate
Analyse X-ray snapshot of HIV-1 protease in action: observation of tetrahedral… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5YRS
- Type
- protein
- Length
- 208 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protease; Rt-rh oligopeprtide
- EC
- 3.4.23.16
- UniProt
- P04585
Structure
x-ray diffraction · 3 distinct chains · 7% helix, 54% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protease (EC 3.4.23.16) | protein | 99 | 7% helix, 56% strand | P04585 |
| B | Protease (EC 3.4.23.16) | protein | 103 | 7% helix, 53% strand | P04585 |
| X | Rt-rh oligopeprtide | protein | 6 | 0% helix, 33% strand | — |
Interfaces
3 interfaces between chains.
- A–B · 1936 Ų buried · 41 hydrogen bonds · protein-protein
- B–X · 492 Ų buried · 8 hydrogen bonds · protein-protein
- A–X · 449 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 modified (nonstandard).
Compared structures
- 5YRS · X-ray Snapshot of HIV-1 Protease in Action: Observation of Tetrahedral Intermediate and… · 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 P04585
- Elsewhere: RCSB PDB 5YRS · PDBe 5YRS · UniProt P04585
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