4NN2

Protein Crystal Structure of Human Borjeson-Forssman-Lehmann Syndrome Associated Protein PHF6

• PDB DOI: https://doi.org/10.2210/pdb4NN2/pdb

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


• Deposited: 2013-11-16 Released: 2014-02-26 
• Deposition Author(s): Liu, Z., Li, F., Zhang, J., Mei, Y., Wu, J., Shi, Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.47 Å
• R-Value Free: 0.176 
• R-Value Work: 0.159 
• R-Value Observed: 0.160 

Literature

Crystal Structure of the second extended PHD domain of human PHF6 protein

Liu, Z., Li, F., Zhang, J., Mei, Y., Wu, J., Shi, Y.

(2014) J Biol Chem 

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 29.37 kDa 
• Atom Count: 2,174 
• Modelled Residue Count: 242 
• Deposited Residue Count: 258 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PHD finger protein 6	A, B	129	Homo sapiens	Mutation(s): 0  Gene Names: PHF6, KIAA1823
UniProt & NIH Common Fund Data Resources
Find proteins for Q8IWS0 (Homo sapiens) Explore Q8IWS0  Go to UniProtKB:  Q8IWS0
PHAROS:  Q8IWS0 GTEx:  ENSG00000156531

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	I [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
ZN	C [auth A], D [auth A], E [auth A], F [auth B], G [auth B], H [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.47 Å
• R-Value Free: 0.176 
• R-Value Work: 0.159 
• R-Value Observed: 0.160 
• Space Group: P 3 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 102.78	α = 90
b = 102.78	β = 90
c = 51.25	γ = 120

Software Package:

Software Name	Purpose
SCALA	data scaling
SHELX	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
MOSFLM	data reduction
SHELXD	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-02-26 
Deposition Author(s): Liu, Z., Li, F., Zhang, J., Mei, Y., Wu, J., Shi, Y.

Revision History  

• Version 1.0: 2014-02-26
  Type: Initial release
  
• Version 1.1: 2014-12-03
  Changes: Structure summary
• Version 1.2: 2024-02-28
  Changes: Data collection, Database references, Derived calculations