1XQ7 | pdb_00001xq7

Cyclophilin from Trypanosoma cruzi bound to cyclosporin A

• PDB DOI: https://doi.org/10.2210/pdb1XQ7/pdb

• Classification: ISOMERASE/IMMUNOSUPPRESSANT
• Organism(s): Trypanosoma cruzi, Tolypocladium inflatum
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2004-10-11 Released: 2004-12-21 
• Deposition Author(s): Caruthers, J.M., Hol, W.G.J., Structural Genomics of Pathogenic Protozoa Consortium (SGPP)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.07 Å
• R-Value Free: 
  0.235 (Depositor), 0.250 (DCC) 
• R-Value Work: 
  0.169 (Depositor), 0.185 (DCC) 
• R-Value Observed: 
  0.172 (Depositor) 

Starting Model: experimental

Literature

Cyclophilin from Trypanosoma Cruzi Bound to Cyclosporin A

Caruthers, J.M., Hol, W.G.J., Structural Genomics of Pathogenic Protozoa Consortium

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 3 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 57.83 kDa 
• Atom Count: 4,356 
• Modeled Residue Count: 531 
• Deposited Residue Count: 531 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PEPTIDYL-PROLYL CIS-TRANS ISOMERASE	A, B, C	166	Trypanosoma cruzi	Mutation(s): 0  EC: 5.2.1.8
UniProt
Find proteins for Q4DPB9 (Trypanosoma cruzi (strain CL Brener)) Explore Q4DPB9  Go to UniProtKB:  Q4DPB9

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
CYCLOSPORIN A	D, E, F	11	Tolypocladium inflatum	Mutation(s): 0

Small Molecules

Modified Residues  5 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
ABA	D, E, F	L-PEPTIDE LINKING	C4 H9 N O2		ALA
BMT	D, E, F	L-PEPTIDE LINKING	C10 H19 N O3		THR
DAL	D, E, F	D-PEPTIDE LINKING	C3 H7 N O2		--
MLE	D, E, F	L-PEPTIDE LINKING	C7 H15 N O2		LEU
MVA	D, E, F	L-PEPTIDE LINKING	C6 H13 N O2		VAL
SAR	D, E, F	PEPTIDE LINKING	C3 H7 N O2		GLY

Biologically Interesting Molecules (External Reference) 

1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_000142	D, E, F	Cyclosporin A	Cyclic peptide / Immunosuppressant

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.07 Å
• R-Value Free:  0.235 (Depositor), 0.250 (DCC) 
• R-Value Work:  0.169 (Depositor), 0.185 (DCC) 
• R-Value Observed: 0.172 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.269	α = 110.49
b = 57.059	β = 108.21
c = 58.807	γ = 105.4

Software Package:

Software Name	Purpose
EPMR	phasing
REFMAC	refinement
ELVES	data reduction
ELVES	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-12-21 
Deposition Author(s): Caruthers, J.M., Hol, W.G.J., Structural Genomics of Pathogenic Protozoa Consortium (SGPP)

Revision History  

• Version 1.0: 2004-12-21
  Type: Initial release
  
• Version 1.1: 2011-06-14
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2011-07-27
  Changes: Atomic model, Database references, Derived calculations, Non-polymer description, Structure summary
• Version 1.4: 2012-12-12
  Changes: Other
• Version 1.5: 2018-01-31
  Changes: Database references
• Version 1.6: 2023-08-23
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.7: 2023-11-15
  Changes: Data collection, Derived calculations