Research workbench
Crystal structure of the MK2H peptide homodimer.
Analyse Crystal structure of the MK2H peptide homodimer. in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7DXR
- Type
- protein
- Length
- 176 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- MK2H protein
- Ligands
- SO4
- Pockets
- 1 · best druggability 0.46
Structure
x-ray diffraction · 3 distinct chains · 23% helix, 36% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | MK2H protein | protein | 48 | 21% helix, 33% strand | — |
| B, D | MK2H protein | protein | 43 | 23% helix, 37% strand | — |
| C | MK2H protein | protein | 42 | 24% helix, 38% strand | — |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 5 copies · chains B, A, C, D
- CXS · 3-cyclohexyl-1-propylsulfonic acid · additive · chains C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 68 | 0.46 | 0.83 | 16 | empty |
Interfaces
6 interfaces between chains.
- A–B · 2231 Ų buried · 50 hydrogen bonds · protein-protein
- C–D · 2210 Ų buried · 50 hydrogen bonds · protein-protein
- A–D · 242 Ų buried · 6 hydrogen bonds · protein-protein
- B–C · 190 Ų buried · 0 hydrogen bonds · protein-protein
- A–C · 171 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 7DXR · Crystal structure of the mk2h peptide homodimer. · 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
- Elsewhere: RCSB PDB 7DXR · PDBe 7DXR
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