Research workbench
Crystal structure of a cysteine-deficient mutant M5 in MAP kinase JNK1
Analyse Crystal structure of a cysteine-deficient mutant M5 in MAP kinase JNK1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3VUK
- Type
- protein
- Length
- 365 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Mitogen-activated protein kinase 8; Peptide from C-jun-amino-terminal kinase-interacting…
- EC
- 2.7.11.24
- UniProt
- A1L4K2, Q9UQF2
- Ligands
- SO4
- Pockets
- 4 · best druggability 0.59
Structure
x-ray diffraction · 2 distinct chains · 37% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Mitogen-activated protein kinase 8 (EC 2.7.11.24) | protein | 355 | 38% helix, 15% strand | A1L4K2 |
| F | Peptide from C-jun-amino-terminal kinase-interacting protein 1 | protein | 10 | 0% helix, 0% strand | Q9UQF2 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 178 | 0.59 | 0.82 | 24 | empty |
| 2 | 190 | 0.54 | 0.79 | 30 | SO4 |
| 3 | 53 | 0.32 | 0.77 | 13 | empty |
| 4 | 66 | 0.30 | 0.74 | 16 | empty |
Interfaces
1 interface between chains.
- A–F · 603 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 3VUK · Crystal structure of a cysteine-deficient mutant M5 in MAP kinase JNK1 · the same entry in another collection · chain A against A, TM-score 1.00
- Q9UQF2 · AlphaFold monomer V2.0 prediction for C-jun-amino-terminal kinase- interacting protein 1… · a predicted model of the same protein · chain F against A, TM-score 0.45
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 A1L4K2
- Every structure of UniProt Q9UQF2
- Elsewhere: RCSB PDB 3VUK · PDBe 3VUK · UniProt A1L4K2 · UniProt Q9UQF2
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