Macromolecule Content

Total Structure Weight: 192.69 kDa
Atom Count: 14,972
Modelled Residue Count: 1,754
Deposited Residue Count: 1,760
Unique protein chains: 2

3ODI

Crystal structure of cyclophilin A in complex with Voclosporin E-ISA247

PDB DOI: 10.2210/pdb3ODI/pdb

Classification: ISOMERASE/IMMUNOSUPPRESSANT
Organism(s): Homo sapiens, Tolypocladium inflatum
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2010-08-11 Released: 2011-02-16
Deposition Author(s): Kuglstatter, A., Stihle, M., Benz, J., Hennig, M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.20 Å
R-Value Free: 0.220
R-Value Work: 0.164
R-Value Observed: 0.166

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Structural basis for the cyclophilin A binding affinity and immunosuppressive potency of E-ISA247 (voclosporin).

Kuglstatter, A., Mueller, F., Kusznir, E., Gsell, B., Stihle, M., Thoma, R., Benz, J., Aspeslet, L., Freitag, D., Hennig, M.

(2011) Acta Crystallogr D Biol Crystallogr 67: 119-123

PubMed: 21245533 Search on PubMedSearch on PubMed Central
DOI: 10.1107/S0907444910051905
Primary Citation of Related Structures:
3ODI, 3ODL

PubMed Abstract:

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cyclophilin A	A, C, E, G, I, K, M, O, Q, S A, C, E, G, I, K, M, O, Q, S	165	Homo sapiens	Mutation(s): 0 Gene Names: PPIA, CYPA 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
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P62937
Protein Feature View Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Voclosporin	B, D, F, H, J, L, N, P, R, T B, D, F, H, J, L, N, P, R, T	11	Tolypocladium inflatum	Mutation(s): 1
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Protein Feature View Expand
Reference Sequence

Small Molecules

Modified Residues 4 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
ABA Query on ABA	B, D, F, H, J, L, N, P, R, T B, D, F, H, J, L, N, P, R, T	L-PEPTIDE LINKING	C₄ H₉ N O₂		ALA
MLE Query on MLE	B, D, F, H, J, L, N, P, R, T B, D, F, H, J, L, N, P, R, T	L-PEPTIDE LINKING	C₇ H₁₅ N O₂		LEU
MVA Query on MVA	B, D, F, H, J, L, N, P, R, T B, D, F, H, J, L, N, P, R, T	L-PEPTIDE LINKING	C₆ H₁₃ N O₂		VAL
SAR Query on SAR	B, D, F, H, J, L, N, P, R, T B, D, F, H, J, L, N, P, R, T	PEPTIDE LINKING	C₃ H₇ N O₂		GLY

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.20 Å
R-Value Free: 0.220
R-Value Work: 0.164
R-Value Observed: 0.166
Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.179	α = 90
b = 161.341	β = 100.06
c = 93.654	γ = 90

Software Package:

Software Name	Purpose
MAR345dtb	data collection
MOLREP	phasing
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2011-02-16

Deposition Author(s):

Kuglstatter, A.

Revision History (Full details and data files)

Version 1.0: 2011-02-16
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2021-10-06
Changes: Database references, Derived calculations

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.