8P3D

Full length structure of TcMIP with bound inhibitor NJS224.

• PDB DOI: https://doi.org/10.2210/pdb8P3D/pdb

• Classification: STRUCTURAL PROTEIN
• Organism(s): Trypanosoma cruzi
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-05-17 Released: 2024-06-12 
• Deposition Author(s): Whittaker, J.J., Guskov, A., Goretzki, B., Hellmich, U.A.
• Funding Organization(s): German Research Foundation (DFG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.71 Å
• R-Value Free: 0.217 
• R-Value Work: 0.182 
• R-Value Observed: 0.183 

Starting Model: experimental

Literature

Structural dynamics of macrophage infectivity potentiator proteins (MIPs) are differentially modulated by inhibitors and appendage domains

Whittaker, J.J., Guskov, A., Goretzki, B., Hellmich, U.A.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: isothermal titration calorimetry

Macromolecule Content

• Total Structure Weight: 19 kDa 
• Atom Count: 1,499 
• Modelled Residue Count: 162 
• Deposited Residue Count: 162 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
peptidylprolyl isomerase	A	162	Trypanosoma cruzi	Mutation(s): 0  Gene Names: Tc00.1047053508897.110 EC: 5.2.1.8
UniProt
Find proteins for Q09734 (Trypanosoma cruzi) Explore Q09734  Go to UniProtKB:  Q09734

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
WS5	B [auth A]	(2~{S})-1-[(4-fluorophenyl)methylsulfonyl]-~{N}-[(2~{S})-4-methyl-1-oxidanylidene-1-(pyridin-3-ylmethylamino)pentan-2-yl]piperidine-2-carboxamide C25 H33 F N4 O4 S SOAYYWKJGVKGEN-GOTSBHOMSA-N
NA	C [auth A], D [auth A], E [auth A], F [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.71 Å
• R-Value Free: 0.217 
• R-Value Work: 0.182 
• R-Value Observed: 0.183 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.858	α = 90
b = 34.696	β = 93.53
c = 53.081	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-06-12 
Deposition Author(s): Whittaker, J.J., Guskov, A., Goretzki, B., Hellmich, U.A.

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Funding Organization	Location	Grant Number
German Research Foundation (DFG)	Germany	390713860

Revision History  

• Version 1.0: 2024-06-12
  Type: Initial release