MolNFT v1 · #102247 · protein
Human menin with bound inhibitor miv-3S
4OG4: “Human menin with bound inhibitor miv-3S”. X-ray diffraction, 3 ligands (2VK, TBF, SO4), 2 pockets (best druggability 0.64). MolNFT v1 #102247 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4OG4
- Type
- protein
- Length
- 469 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Menin
- UniProt
- O00255
- Ligands
- 2VK, TBF, SO4
- Pockets
- 2 · best druggability 0.64
Structure
x-ray diffraction · 1 distinct chain · 57% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Menin | protein | 469 | 57% helix, 6% strand | O00255 |
Ligands and binding sites
- 2VK · 4-(3-{4-[(S)-cyclopentyl(hydroxy)phenylmethyl]piperidin-1-yl}propoxy)benzonitrile · ligand · chains A
- TBF · Tert-butyl formate · ligand
- SO4 · Sulfate ion · ion · chains A
- DMS · Dimethyl sulfoxide · additive · 4 copies · chains A
- PEG · Di(hydroxyethyl)ether · additive · 2 copies · chains A
- PG4 · Tetraethylene glycol · additive · chains A
- PGE · Triethylene glycol · 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 | 584 | 0.64 | 0.75 | 62 | 2VK, TBF |
| 2 | 98 | 0.38 | 0.76 | 20 | empty |
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 O00255
- Elsewhere: RCSB PDB 4OG4 · PDBe 4OG4 · UniProt O00255
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