8PQO

PITP in complex with the inhibitor VT01545

• PDB DOI: https://doi.org/10.2210/pdb8PQO/pdb

• Classification: LIPID BINDING PROTEIN
• Organism(s): Homo sapiens, synthetic construct
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-07-11 Released: 2024-05-08 
• Deposition Author(s): Boura, E., Eisenreichova, A.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.282 
• R-Value Work: 0.235 
• R-Value Observed: 0.237 

Starting Model: experimental

Literature

PITP in complex with the inhibitor VT01545

Boura, E., Eisenreichova, A.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 33.05 kDa 
• Atom Count: 2,382 
• Modelled Residue Count: 258 
• Deposited Residue Count: 277 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phosphatidylinositol transfer protein alpha isoform	A	271	Homo sapiens	Mutation(s): 0  Gene Names: PITPNA, PITPN
UniProt & NIH Common Fund Data Resources
Find proteins for Q00169 (Homo sapiens) Explore Q00169  Go to UniProtKB:  Q00169
PHAROS:  Q00169 GTEx:  ENSG00000174238

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Inhibitor VT01545	B [auth C]	6	synthetic construct	Mutation(s): 0

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	D [auth A], E [auth A], G [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
IMD	C [auth A]	IMIDAZOLE C3 H5 N2 RAXXELZNTBOGNW-UHFFFAOYSA-O
NI	F [auth A]	NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.282 
• R-Value Work: 0.235 
• R-Value Observed: 0.237 
• Space Group: P 2 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.33	α = 90
b = 81.906	β = 90
c = 94.701	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-05-08 
Deposition Author(s): Boura, E., Eisenreichova, A.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-05-08
  Type: Initial release
  
• Version 1.1: 2024-05-29
  Changes: Database references
• Version 2.0: 2024-07-10
  Changes: Advisory, Atomic model, Author supporting evidence, Data collection, Database references, Derived calculations, Experimental preparation, Non-polymer description, Other, Polymer sequence, Source and taxonomy, Structure summary
• Version 3.0: 2024-07-17
  Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Non-polymer description, Polymer sequence, Structure summary