Biological Assembly 1  

 3D View: Structure

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 9.21 kDa 
• Atom Count: 649 
• Residue Count: 83 
• Unique protein chains: 1

2KYX

Solution structure of the RRM domain of CYP33

• DOI: 10.2210/pdb2KYX/pdb
• BMRB: 16989

• Classification: ISOMERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2010-06-09 Released: 2010-08-25 
• Deposition Author(s): Park, S., Bushweller, J.H.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 10 
• Selection Criteria: structures with the lowest energy 

Literature

The PHD3 domain of MLL acts as a CYP33-regulated switch between MLL-mediated activation and repression .

Park, S., Osmers, U., Raman, G., Schwantes, R.H., Diaz, M.O., Bushweller, J.H.

(2010) Biochemistry 49: 6576-6586

• PubMed: 20677832 
• DOI: 10.1021/bi1009387
• Primary Citation of Related Structures:  
  2KYU, 2KYX


• PubMed Abstract: 
  

The mixed lineage leukemia (MLL) gene plays a critical role in epigenetic regulation of gene expression and is a frequent target of chromosomal translocations leading to leukemia. MLL plant homeodomain 3 (PHD3) is lost in all MLL translocation products, and reinsertion of PHD3 into MLL fusion proteins abrogates their transforming activity. PHD3 has been shown to interact with the RNA-recognition motif (RRM) domain of human nuclear Cyclophilin33 (CYP33). Here, we show that CYP33 mediates downregulation of the expression of MLL target genes HOXC8, HOXA9, CDKN1B, and C-MYC, in a proline isomerase-dependent manner. This downregulation correlates with the reduction of trimethylated lysine 4 of histone H3 (H3K4me3) and histone H3 acetylation. We have structurally characterized both the PHD3 and CYP33 RRM domains and analyzed their binding to one another. The PHD3 domain binds H3K4me3 (preferentially) and the CYP33 RRM domain at distinct sites. Our binding data show that binding of H3K4me3 to PHD3 and binding of the CYP33 RRM domain to PHD3 are mutually inhibitory, implying that PHD3 is a molecular switch for the transition between activation and repression of target genes. To explore the possible mechanism of CYP33/PHD3-mediated repression, we have analyzed the CYP33 proline isomerase activity on various H3 and H4 peptides and shown selectivity for two sites in H3. Our results provide a possible mechanism for the MLL PHD3 domain to act as a switch between activation and repression.

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Organizational Affiliation: 

Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, Virginia 22908, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Peptidyl-prolyl cis-trans isomerase E	A	83	Homo sapiens	Mutation(s): 0  Gene Names: PPIE, CYP33 EC: 5.2.1.8
Find proteins for Q9UNP9 (Homo sapiens) Explore Q9UNP9  Go to UniProtKB:  Q9UNP9
NIH Common Fund Data Resources
PHAROS  Q9UNP9 GTEx  ENSG00000084072

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 10 
• Selection Criteria: structures with the lowest energy 
• OLDERADO: 2KYX Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2010-06-09 
• Released Date: 2010-08-25 
Deposition Author(s): Park, S., Bushweller, J.H.

Revision History 

• Version 1.0: 2010-08-25
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2020-02-05
  Changes: Database references, Other