1CWO

HUMAN CYCLOPHILIN A COMPLEXED WITH THR2, LEU5, D-HIV8, LEU10 CYCLOSPORIN

• PDB DOI: https://doi.org/10.2210/pdb1CWO/pdb

• Classification: ISOMERASE/IMMUNOSUPPRESSANT
• Organism(s): Homo sapiens, Tolypocladium inflatum
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 1998-06-05 Released: 1998-08-12 
• Deposition Author(s): Mikol, V., Kallen, J., Taylor, P., Walkinshaw, M.D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.86 Å

Starting Model: experimental

Literature

Conformational Differences of an Immunosuppressant Peptolide in a Single Crystal and in a Crystal Complex with Human Cyclophilin A.

Mikol, V., Taylor, P., Kallen, J., Walkinshaw, M.D.

(1998) J Mol Biol 283: 451

• PubMed: 9769217 
• DOI: https://doi.org/10.1006/jmbi.1998.2109
• Primary Citation of Related Structures:  
  1CWO


• PubMed Abstract: 
  

  The crystal structure of (Thr2, Leu5, d-Hiv8, Leu10)-cyclosporin (cyclic peptolide SDZ 214-103) has been determined as the unbound crystal form and as a complex with human cyclophilin A. This pair of structures provides an example of a significant difference in conformation between free and bound ligand in crystals. The conformation of the unbound form is unlike that of both free and bound conformations of cyclosporin A (with the amide bond between residues 3 and 4 in the cis conformation), while the bound conformation is similar to that of CsA bound to cyclophilin. The cyclophilin-bound conformations of both ligands are similar, though this involves a significantly different waterellipsisligand hydrogen-bonding structure, which compensates for the chemical differences between the two ligands.

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Organizational Affiliation: 

The University of Edinburgh, Michael Swann Building, Edinburgh, EH9 3JR, UK.

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 19.3 kDa 
• Atom Count: 1,570 
• Modelled Residue Count: 176 
• Deposited Residue Count: 176 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PEPTIDYL-PROLYL CIS-TRANS ISOMERASE A	A	165	Homo sapiens	Mutation(s): 0  Gene Names: CYCLOPHILIN EC: 5.2.1.8
UniProt & NIH Common Fund Data Resources
Find proteins for P62937 (Homo sapiens) Explore P62937  Go to UniProtKB:  P62937
PHAROS:  P62937 GTEx:  ENSG00000196262

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
CYCLOSPORIN C	B [auth C]	11	Tolypocladium inflatum	Mutation(s): 3

Small Molecules

Modified Residues  5 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
BMT	B [auth C]	L-PEPTIDE LINKING	C10 H19 N O3		THR
MLE	B [auth C]	L-PEPTIDE LINKING	C7 H15 N O2		LEU
MVA	B [auth C]	L-PEPTIDE LINKING	C6 H13 N O2		VAL
SAR	B [auth C]	PEPTIDE LINKING	C3 H7 N O2		GLY
VAD	B [auth C]	L-PEPTIDE LINKING	C5 H10 O3		VAL

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_001123	B [auth C]	Cyclosporin C variant (DAL 1 to VAD, MLE 3 to LEU, VAL 9 to LEU)	Cyclic peptide / Immunosuppressant

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.86 Å
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 36.41	α = 90
b = 57.44	β = 90
c = 71.9	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
XENGEN	data reduction
CCP4	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1998-08-12 
Deposition Author(s): Mikol, V., Kallen, J., Taylor, P., Walkinshaw, M.D.

Revision History  

• Version 1.0: 1998-08-12
  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: 2013-06-26
  Changes: Other
• Version 1.6: 2018-04-18
  Changes: Data collection, Other
• Version 1.7: 2023-08-09
  Changes: Database references, Derived calculations, Refinement description