2RMA

Crystal structures of cyclophilin A complexed with cyclosporin A and N-methyl-4-[(E)-2-butenyl]-4,4-dimethylthreonine cyclosporin A

• PDB DOI: https://doi.org/10.2210/pdb2RMA/pdb

• Classification: ISOMERASE/IMMUNOSUPPRESSANT
• Organism(s): Homo sapiens, Tolypocladium inflatum
• Mutation(s): No 


• Deposited: 1994-01-07 Released: 1995-02-07 
• Deposition Author(s): Ke, H., Mayrose, D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Work: 0.170 
• R-Value Observed: 0.170 

Literature

Crystal Structures of Cyclophilin a Complexed with Cyclosporin a and N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine Cyclosporin A.

Ke, H., Mayrose, D., Belshaw, P.J., Alberg, D.G., Schreiber, S.L., Chang, Z.Y., Etzkorn, F.A., Ho, S., Walsh, C.T.

(1994) Structure 2: 33

• PubMed: 8075981 
• DOI: https://doi.org/10.1016/s0969-2126(00)00006-x
• Primary Citation of Related Structures:  
  2RMA, 2RMB


• PubMed Abstract: 
  

  Cyclophilin (CyP) is a ubiquitious intracellular protein that binds the immunosuppressive drug cyclosporin A (CsA). CyP-CsA forms a ternary complex with calcineurin and thereby inhibits T-cell activation. CyP also has enzymatic activity, catalyzing the cis-trans isomerization of peptidyl-prolyl amide bonds.

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Organizational Affiliation: 

Department of Biochemistry and Biophysics, School of Medicine, University of North Carolina, Chapel HIll 27599.

Biological Assembly 1  

Global Symmetry: Dihedral - D5  (Explore in 3D)
Global Stoichiometry: Hetero 20-mer - A10B10 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 20-mer - A10B1C1D1E1F1G1H1I1J1K1 

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 192.57 kDa 
• Atom Count: 14,142 
• Modelled Residue Count: 1,760 
• Deposited Residue Count: 1,760 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PEPTIDYL-PROLYL CIS-TRANS ISOMERASE	A, C, E, G, I, K, M, O, Q, S	165	Homo sapiens	Mutation(s): 0  Gene Names: CYCLOPHILIN A 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 A	B, D, F, H, J, L, N, P, R, T	11	Tolypocladium inflatum	Mutation(s): 0

Small Molecules

Modified Residues  5 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
ABA	B, D, F, H, J, L, N, P, R, T	L-PEPTIDE LINKING	C4 H9 N O2		ALA
BMT	B, D, F, H, J, L, N, P, R, T	L-PEPTIDE LINKING	C10 H19 N O3		THR
MLE	B, D, F, H, J, L, N, P, R, T	L-PEPTIDE LINKING	C7 H15 N O2		LEU
MVA	B, D, F, H, J, L, N, P, R, T	L-PEPTIDE LINKING	C6 H13 N O2		VAL
SAR	B, D, F, H, J, L, N, P, R, T	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	B, D, F, H, J, L, N, P, R, T	Cyclosporin A	Cyclic peptide / Immunosuppressant

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Work: 0.170 
• R-Value Observed: 0.170 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.6	α = 90
b = 160.9	β = 90.6
c = 95.3	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1995-02-07 
Deposition Author(s): Ke, H., Mayrose, D.

Revision History  

• Version 1.0: 1995-02-07
  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: 2017-11-01
  Changes: Derived calculations, Other