6FK1 | pdb_00006fk1

Cyclophilin A

PDB DOI: https://doi.org/10.2210/pdb6FK1/pdb

Classification: ISOMERASE
Organism(s): Mus musculus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2018-01-23 Released: 2019-02-06
Deposition Author(s): Lisboa, J., dos Santos, N.M.S.
Funding Organization(s): FCT, COMPETE 2020

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.30 Å
R-Value Free:
0.181 (Depositor), 0.181 (DCC)
R-Value Work:
0.163 (Depositor), 0.164 (DCC)
R-Value Observed:
0.164 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Production, crystallization and structure determination of cyclophilin A from Mus musculus

Lisboa, J., dos Santos, N.M.S.

To be published.

Macromolecule Content

Total Structure Weight: 19.19 kDa
Atom Count: 1,442
Modeled Residue Count: 168
Deposited Residue Count: 172
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Peptidyl-prolyl cis-trans isomerase A	A	172	Mus musculus	Mutation(s): 0 Gene Names: Ppia EC: 5.2.1.8
UniProt & NIH Common Fund Data Resources
Find proteins for P17742 (Mus musculus) Explore P17742 Go to UniProtKB: P17742
IMPC: MGI:97749
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P17742
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
EDO Query on EDO Download:Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain B [auth A] MOL2 format, chain C [auth A] MOL2 format, chain B [auth A] mmCIF format, chain C [auth A] mmCIF format, chain B [auth A]	B [auth A], C [auth A]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Focus chain C [auth A] Interactions & Density Focus chain B [auth A] Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.30 Å
R-Value Free: 0.181 (Depositor), 0.181 (DCC)
R-Value Work: 0.163 (Depositor), 0.164 (DCC)
R-Value Observed: 0.164 (Depositor)

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 61.717	α = 90
b = 61.717	β = 90
c = 93.13	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2019-02-06

Deposition Author(s):

dos Santos, N.M.S.

Funding Organization	Location	Grant Number
FCT	Portugal	POCI-01-0145-FEDER-016608
COMPETE 2020	Portugal	Norte-01-0145-FEDER-000012

Revision History (Full details and data files)

Version 1.0: 2019-02-06
Type: Initial release
Version 1.1: 2024-01-17
Changes: Data collection, Database references, Refinement description

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.