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Crystal structure of unliganded PDE5A gaf domain
Analyse Crystal structure of unliganded PDE5A gaf domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3LFV
- Type
- protein
- Length
- 771 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cgmp-specific 3',5'-cyclic phosphodiesterase
- EC
- 3.1.4.35
- UniProt
- O76074
- Pockets
- 13 · best druggability 0.77
Structure
x-ray diffraction · 2 distinct chains · 39% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cgmp-specific 3',5'-cyclic phosphodiesterase (EC 3.1.4.35) | protein | 391 | 40% helix, 21% strand | O76074 |
| B | Cgmp-specific 3',5'-cyclic phosphodiesterase (EC 3.1.4.35) | protein | 380 | 38% helix, 20% strand | O76074 |
Pockets
13 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 921 | 0.77 | 0.80 | 91 | empty |
| 2 | 323 | 0.67 | 0.81 | 28 | empty |
| 3 | 314 | 0.66 | 0.81 | 38 | empty |
| 4 | 312 | 0.64 | 0.80 | 25 | empty |
| 5 | 458 | 0.64 | 0.77 | 55 | empty |
Interfaces
1 interface between chains.
- A–B · 3107 Ų buried · 32 hydrogen bonds · protein-protein
Compared structures
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 O76074
- Elsewhere: RCSB PDB 3LFV · PDBe 3LFV · UniProt O76074
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