Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

Biological assembly 1 generated by PISA (software)

Biological Assembly Evidence: assay for oligomerization

Macromolecule Content

• Total Structure Weight: 22.53 kDa 
• Atom Count: 1432 
• Modelled Residue Count: 168 
• Deposited Residue Count: 201 
• Unique protein chains: 1

6U04

Crystal structure of human BRPF1 PZP bound to histone H3 tail

• PDB DOI: 10.2210/pdb6U04/pdb

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


• Deposited: 2019-08-13 Released: 2019-11-27 
• Deposition Author(s): Klein, B.J., Kutateladze, T.G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.208 
• R-Value Work: 0.172 
• R-Value Observed: 0.176 

Literature

Molecular Basis for the PZP Domain of BRPF1 Association with Chromatin.

Klein, B.J., Cox, K.L., Jang, S.M., Cote, J., Poirier, M.G., Kutateladze, T.G.

(2020) Structure 28: 105-110.e3

• PubMed: 31711755 
• DOI: 10.1016/j.str.2019.10.014
• Primary Citation of Related Structures:  
  6U04


• PubMed Abstract: 
  

The assembly of human histone acetyltransferase MOZ/MORF complexes relies on the scaffolding bromodomain plant homeodomain (PHD) finger 1 (BRPF1) subunit. The PHD-zinc-knuckle-PHD module of BRPF1 (BRPF1 _PZP ) has been shown to associate with the histone H3 tail and DNA; however, the molecular mechanism underlying recognition of H3 and the relationship between the histone and DNA-binding activities remain unclear. In this study, we report the crystal structure of BRPF1 _PZP bound to the H3 tail and characterize the role of the bipartite interaction in the engagement of BRPF1 _PZP with the nucleosome core particle (NCP). We find that although both interactions of BRPF1 _PZP with the H3 tail and DNA are required for tight binding to NCP and for acetyltransferase function of the BRPF1-MORF-ING5-MEAF6 complex, binding to extranucleosomal DNA dominates. Our findings suggest that functionally active BRPF1 _PZP might be important in stabilization of the MOZ/MORF complexes at chromatin with accessible DNA.

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Organizational Affiliation: 

Department of Pharmacology, University of Colorado School of Medicine, Aurora, CO 80045, USA. Electronic address: [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Histone H3.3,BRPF1, Peregrin	A	201	Homo sapiens	Mutation(s): 0  Gene Names: H3F3A, H3.3A, H3F3, PP781, H3F3B, H3.3B, BRPF1, BR140
UniProt & NIH Common Fund Data Resources
Find proteins for P84243 (Homo sapiens) Explore P84243  Go to UniProtKB:  P84243
PHAROS:  P84243 GTEx:  ENSG00000163041
Find proteins for P55201 (Homo sapiens) Explore P55201  Go to UniProtKB:  P55201
PHAROS:  P55201 GTEx:  ENSG00000156983
UniProt Groups	P55201P84243

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PR	B [auth A]	PRASEODYMIUM ION Pr WCWKKSOQLQEJTE-UHFFFAOYSA-N
ZN	C [auth A], D [auth A], E [auth A], F [auth A], G [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.208 
• R-Value Work: 0.172 
• R-Value Observed: 0.176 
• Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.461	α = 90
b = 72.461	β = 90
c = 155.297	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data scaling
PDB_EXTRACT	data extraction
HKL-3000	data reduction
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2019-08-13 
• Released Date: 2019-11-27 
Deposition Author(s): Klein, B.J., Kutateladze, T.G.

Revision History  

• Version 1.0: 2019-11-27
  Type: Initial release
  
• Version 1.1: 2020-01-22
  Changes: Database references