Research workbench
Crystal structure of human mixed lineage kinase MAP3K10 SH3 domain
Analyse Crystal structure of human mixed lineage kinase MAP3K10 SH3 domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2RF0
- Type
- protein
- Length
- 241 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Mitogen-activated protein kinase kinase kinase 10
- EC
- 2.7.11.25
- UniProt
- Q02779
- Pockets
- 2 · best druggability 0.41
Structure
x-ray diffraction · 3 distinct chains · 9% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Mitogen-activated protein kinase kinase kinase 10 (EC 2.7.11.25) | protein | 62 | 11% helix, 40% strand | Q02779 |
| B | Mitogen-activated protein kinase kinase kinase 10 (EC 2.7.11.25) | protein | 56 | 5% helix, 45% strand | Q02779 |
| D | Mitogen-activated protein kinase kinase kinase 10 (EC 2.7.11.25) | protein | 61 | 11% helix, 41% strand | Q02779 |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · 2 copies · chains A, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 158 | 0.41 | 0.73 | 25 | empty |
| 2 | 82 | 0.29 | 0.72 | 20 | EDO |
Interfaces
3 interfaces between chains.
- B–C · 378 Ų buried · 4 hydrogen bonds · protein-protein
- A–B · 357 Ų buried · 3 hydrogen bonds · protein-protein
- A–D · 348 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 2RF0 · Crystal structure of human mixed lineage kinase MAP3K10 SH3 domain · the same entry in another collection · chain C against C, TM-score 1.00
- Q02779 · AlphaFold monomer V2.0 prediction for mitogen-activated protein kinase kinase kinase 10… · a predicted model of the same protein · chain D against A, TM-score 0.98
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 Q02779
- Elsewhere: RCSB PDB 2RF0 · PDBe 2RF0 · UniProt Q02779
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