MolNFT v1 · #28269 · protein
Crystal structure of the P19A/N67D variant of bovine seminal ribonuclease
1Y92: “Crystal structure of the P19A/N67D variant of bovine seminal ribonuclease”. X-ray diffraction, 3 pockets (best druggability 0.48). MolNFT v1 #28269 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1Y92
- Type
- protein
- Length
- 244 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Seminal ribonuclease
- EC
- 3.1.27.5
- UniProt
- P00669
- Pockets
- 3 · best druggability 0.48
Structure
x-ray diffraction · 2 distinct chains · 24% helix, 36% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Seminal ribonuclease (EC 3.1.27.5) | protein | 120 | 24% helix, 37% strand | P00669 |
| B | Seminal ribonuclease (EC 3.1.27.5) | protein | 124 | 24% helix, 35% strand | P00669 |
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 205 | 0.48 | 0.75 | 23 | empty |
| 2 | 87 | 0.43 | 0.80 | 27 | empty |
| 3 | 112 | 0.35 | 0.73 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 1733 Ų buried · 28 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 disulfide (disulfide).
Compared structures
- 1Y92 · Crystal structure of the P19A/N67D Variant Of Bovine seminal Ribonuclease · the same entry in another collection · chain A against A, TM-score 1.00
- P00669 · AlphaFold monomer V2.0 prediction for seminal ribonuclease (P00669) · a predicted model of the same protein · chain A against A, TM-score 0.85
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 P00669
- Elsewhere: RCSB PDB 1Y92 · PDBe 1Y92 · UniProt P00669
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