Research workbench
Crystal structure of murine N1-acetylpolyamine oxidase in complex with N1-acetylspermine
Analyse Crystal structure of murine N1-acetylpolyamine oxidase in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5LFO
- Type
- protein
- Length
- 469 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Peroxisomal N(1)-acetyl-SPERMINE/SPERMIDINE oxidase, peroxisomal…
- EC
- 1.5.3.13
- UniProt
- Q8C0L6
- Ligands
- FAD, SP5
- Pockets
- 2 · best druggability 0.81
Structure
x-ray diffraction · 1 distinct chain · 39% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Peroxisomal N(1)-acetyl-SPERMINE/SPERMIDINE oxidase, peroxisomal N(1)-acetyl-SPERMINE/SPERMIDINE oxidase (EC 1.5.3.13) | protein | 469 | 39% helix, 20% strand | Q8C0L6 |
Ligands and binding sites
- FAD · Flavin-adenine dinucleotide · ligand · chains A
- SP5 · N-[3-({4-[(3-aminopropyl)amino]butyl}amino) propyl]acetamide · ligand · chains A
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1058 | 0.81 | 0.82 | 113 | FAD, SP5 |
| 2 | 87 | 0.33 | 0.74 | 23 | empty |
Compared structures
- 5LFO · Crystal structure of murine N1-acetylpolyamine oxidase in complex with N1-acetylspermine · the same entry in another collection · chain A against A, TM-score 1.00
- Q8C0L6 · AlphaFold monomer V2.0 prediction for peroxisomal N(1)-acetyl- SPERMINE/SPERMIDINE… · a predicted model of the same protein · 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 Q8C0L6
- Elsewhere: RCSB PDB 5LFO · PDBe 5LFO · UniProt Q8C0L6
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