Research workbench
4-(2-ISOTHIOCYANATOETHYL)PHENOL inhibitor complexed with macrophage migration inhibitory factor
Analyse 4-(2-ISOTHIOCYANATOETHYL)PHENOL inhibitor complexed with macrophage migration… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4OSF
- Type
- protein
- Length
- 342 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Macrophage migration inhibitory factor
- EC
- 5.3.2.1, 5.3.3.12
- UniProt
- P14174
- Ligands
- 4MT, SO4, CL
- Pockets
- 5 · best druggability 0.82
Structure
x-ray diffraction · 1 distinct chain · 39% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Macrophage migration inhibitory factor (EC 5.3.2.1, 5.3.3.12) | protein | 114 | 39% helix, 31% strand | P14174 |
Ligands and binding sites
- 4MT · N-[2-(4-hydroxyphenyl)ethyl]thioformamide · ligand · 3 copies · chains A, C, B
- SO4 · Sulfate ion · ion · 12 copies · chains A, B, C
- CL · Chloride ion · ion · 2 copies · chains A, B
- IPA · Isopropyl alcohol · additive · chains C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 575 | 0.82 | 0.88 | 51 | SO4 |
| 2 | 123 | 0.61 | 0.85 | 14 | 4MT |
| 3 | 116 | 0.59 | 0.85 | 14 | 4MT, IPA |
| 4 | 116 | 0.56 | 0.83 | 16 | 4MT, SO4 |
| 5 | 120 | 0.37 | 0.73 | 18 | empty |
Interfaces
3 interfaces between chains.
- A–C · 1158 Ų buried · 18 hydrogen bonds · protein-protein
- A–B · 1139 Ų buried · 17 hydrogen bonds · protein-protein
- B–C · 1132 Ų buried · 18 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 covalent (covalent ligand).
Compared structures
- 4OSF · 4-(2-isothiocyanatoethyl)phenol inhibitor complexed with Macrophage Migration Inhibitory… · 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 P14174
- Elsewhere: RCSB PDB 4OSF · PDBe 4OSF · UniProt P14174
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