Research workbench
Trimolecular complex Cyp33-RRMdelta alpha : MLL1-PHD3 : H3K4me3
Analyse Trimolecular complex Cyp33-RRMdelta alpha : MLL1-PHD3 : H3K4me3 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7ZEZ
- Type
- protein
- Length
- 170 residues
- Chains
- 3
- Method
- solution nmr
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- NOT
- Source
- Homo sapiens; SYNTHETIC CONSTRUCT
- Molecule
- Isoform 3 of Peptidyl-prolyl cis-trans isomerase E; MLL cleavage product N320; Histone H3
- EC
- 5.2.1.8
- UniProt
- Q9UNP9, Q03164, B4E380
- Ligands
- ZN
- Pockets
- 1 · best druggability 0.42
Structure
solution nmr · resolution NOT · 3 distinct chains · 18% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Isoform 3 of Peptidyl-prolyl cis-trans isomerase E (EC 5.2.1.8) | protein | 93 | 24% helix, 30% strand | Q9UNP9 |
| B | MLL cleavage product N320 | protein | 64 | 14% helix, 13% strand | Q03164 |
| D | Histone H3 | protein | 13 | 0% helix, 8% strand | B4E380 |
Ligands and binding sites
- ZN · Zinc ion · metal · 2 copies · chains B
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 | 143 | 0.42 | 0.75 | 23 | empty |
Interfaces
3 interfaces between chains.
- A–B · 909 Ų buried · 12 hydrogen bonds · protein-protein
- B–D · 718 Ų buried · 8 hydrogen bonds · protein-protein
- A–D · 43 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 modified (methylation).
Compared structures
- 7ZEZ · RNA binding induces an allosteric switch in CYP33 to repress MLL1 mediated transcription… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9UNP9 · AlphaFold monomer V2.0 prediction for peptidyl-prolyl cis-trans isomerase E (Q9UNP9) · a predicted model of the same protein · chain A against A, TM-score 0.79
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 Q9UNP9
- Every structure of UniProt Q03164
- Every structure of UniProt B4E380
- Elsewhere: RCSB PDB 7ZEZ · PDBe 7ZEZ · UniProt Q9UNP9 · UniProt Q03164 · UniProt B4E380
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