7PCJ

X-ray structure of CypA-C52AK125C/CsA/aromatic foldamer complex

PDB DOI: https://doi.org/10.2210/pdb7PCJ/pdb

Classification: CYTOSOLIC PROTEIN
Organism(s): Homo sapiens, Tolypocladium inflatum
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2021-08-03 Released: 2022-07-13
Deposition Author(s): Vallade, M., Langlois d'Estaintot, B., Fischer, L., Buratto, J., Savko, M., Huc, I.
Funding Organization(s): Other government

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.91 Å
R-Value Free: 0.219
R-Value Work: 0.177
R-Value Observed: 0.179

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.1 of the entry. See complete history.

Literature

X-ray structure of a cystein mutant of Cyclophilin A tethered to an aromatic oligoamide foldamer complexed with Cyclosporin A

Fischer, L., Savko, M., Langlois d'Estaintot, B., Buratto, J., Vallade, M., Huc, I.

To be published.

Macromolecule Content

Total Structure Weight: 41.6 kDa
Atom Count: 3,009
Modelled Residue Count: 350
Deposited Residue Count: 352
Unique protein chains: 2

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Peptidyl-prolyl cis-trans isomerase A	A, C [auth D]	165	Homo sapiens	Mutation(s): 1 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 GTEx: ENSG00000196262
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P62937
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Cyclosporin A	B, D [auth E]	11	Tolypocladium inflatum	Mutation(s): 0
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
7I7 Query on 7I7 Download Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain P [auth D] MOL2 format, chain E [auth A] MOL2 format, chain P [auth D]	E [auth A], P [auth D]	N-[2-[2-[2-(2-formamidoethoxy)ethoxy]ethoxy]ethyl]-3-sulfanyl-propanamide C₁₂ H₂₄ N₂ O₅ S QOVHNXIZZNSLDI-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Focus chain P [auth D] Interactions & Density Focus chain E [auth A] Focus chain P [auth D]
7IB Query on 7IB Download Ideal Coordinates CCD File SDF format, chain J [auth A] SDF format, chain O [auth D] MOL2 format, chain J [auth A] MOL2 format, chain O [auth D]	J [auth A], O [auth D]	8-azanyl-5-(4-oxidanyl-4-oxidanylidene-butyl)quinoline-2-carboxylic acid C₁₄ H₁₄ N₂ O₄ AHGXWTCIRIDJEN-UHFFFAOYSA-N		Interactions Focus chain J [auth A] Focus chain O [auth D] Interactions & Density Focus chain J [auth A] Focus chain O [auth D]
QUK Query on QUK Download Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain I [auth A] SDF format, chain K [auth D] SDF format, chain N [auth D] MOL2 format, chain F [auth A] MOL2 format, chain I [auth A] MOL2 format, chain K [auth D] MOL2 format, chain N [auth D]	F [auth A], I [auth A], K [auth D], N [auth D]	8-azanyl-4-(3-azanylpropoxy)quinoline-2-carboxylic acid C₁₃ H₁₅ N₃ O₃ QGMHWPPZJKLYHR-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain I [auth A] Focus chain K [auth D] Focus chain N [auth D] Interactions & Density Focus chain F [auth A] Focus chain I [auth A] Focus chain K [auth D] Focus chain N [auth D]
QUJ Query on QUJ Download Ideal Coordinates CCD File SDF format, chain H [auth A] SDF format, chain M [auth D] MOL2 format, chain H [auth A] MOL2 format, chain M [auth D]	H [auth A], M [auth D]	8-azanyl-4-(2-methylpropoxy)quinoline-2-carboxylic acid C₁₄ H₁₆ N₂ O₃ UQMUZAYVJKDBFB-UHFFFAOYSA-N		Interactions Focus chain H [auth A] Focus chain M [auth D] Interactions & Density Focus chain H [auth A] Focus chain M [auth D]
QVS Query on QVS Download Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain L [auth D] MOL2 format, chain G [auth A] MOL2 format, chain L [auth D]	G [auth A], L [auth D]	8-azanyl-4-oxidanyl-quinoline-2-carboxylic acid C₁₀ H₈ N₂ O₃ KZBXAHDVCSOKJO-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Focus chain L [auth D] Interactions & Density Focus chain G [auth A] Focus chain L [auth D]

Modified Residues 5 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
ABA Query on ABA	B, D [auth E]	L-PEPTIDE LINKING	C₄ H₉ N O₂		ALA
BMT Query on BMT	B, D [auth E]	L-PEPTIDE LINKING	C₁₀ H₁₉ N O₃		THR
MLE Query on MLE	B, D [auth E]	L-PEPTIDE LINKING	C₇ H₁₅ N O₂		LEU
MVA Query on MVA	B, D [auth E]	L-PEPTIDE LINKING	C₆ H₁₃ N O₂		VAL
SAR Query on SAR	B, D [auth E]	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 Query on PRD_000142	B, D [auth E]	Cyclosporin A	Cyclic peptide / Immunosuppressant		Interactions Focus chain B Focus chain D [auth E] Interactions & Density Focus chain B Focus chain D [auth E]