1CWK

HUMAN CYCLOPHILIN A COMPLEXED WITH 1-(6,7-DIHYDRO)MEBMT 2-VAL 3-D-(2-S-METHYL)SARCOSINE CYCLOSPORIN

• PDB DOI: https://doi.org/10.2210/pdb1CWK/pdb

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


• Deposited: 1998-05-26 Released: 1998-07-15 
• Deposition Author(s): Mikol, V., Kallen, J., Taylor, P., Walkinshaw, M.D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Work: 0.165 
• R-Value Observed: 0.165 

Starting Model: experimental

Literature

X-Ray Structures and Analysis of 11 Cyclosporin Derivatives Complexed with Cyclophilin A.

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

(1998) J Mol Biol 283: 435

• PubMed: 9769216 
• DOI: https://doi.org/10.1006/jmbi.1998.2108
• Primary Citation of Related Structures:  
  1BCK, 1CWF, 1CWH, 1CWI, 1CWJ, 1CWK, 1CWL, 1CWM


• PubMed Abstract: 
  

  Eight new X-ray structures of different cyclophilin A/cyclosporin-derivative complexes are presented. These structures, combined with the existing three published cyclosporin complexes, provide a useful structural database for the analysis of protein-ligand interactions. The effect of small chemical differences on protein-ligand hydrogen-bonding, van der Waals interactions and water structure is presented.

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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: 19.32 kDa 
• Atom Count: 1,503 
• 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 D	B [auth C]	11	Tolypocladium inflatum	Mutation(s): 2

Small Molecules

Modified Residues  4 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MLE	B [auth C]	L-PEPTIDE LINKING	C7 H15 N O2		LEU
MSA	B [auth C]	L-PEPTIDE LINKING	C4 H9 N O2 S		GLY
MVA	B [auth C]	L-PEPTIDE LINKING	C6 H13 N O2		VAL
TMD	B [auth C]	L-PEPTIDE LINKING	C10 H21 N O3		THR

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_000764	B [auth C]	CYCLOSPORIN D, 5,7 mutation	Cyclic peptide / Immunosuppressant

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Work: 0.165 
• R-Value Observed: 0.165 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 36.4	α = 90
b = 60.6	β = 90
c = 72.6	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: 1998-07-15 
Deposition Author(s): Mikol, V., Kallen, J., Taylor, P., Walkinshaw, M.D.

Revision History  

• Version 1.0: 1998-07-15
  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: 2023-08-09
  Changes: Database references, Derived calculations, Other, Refinement description