3QRD | pdb_00003qrd

Crystal structure of L68V mutant of human cystatin C

• PDB DOI: https://doi.org/10.2210/pdb3QRD/pdb

• Classification: HYDROLASE INHIBITOR
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2011-02-17 Released: 2012-02-29 
• Deposition Author(s): Orlikowska, M., Borek, D., Otwinowski, Z., Skowron, P., Szymanska, A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.19 Å
• R-Value Free: 
  0.293 (Depositor), 0.320 (DCC) 
• R-Value Work: 
  0.214 (Depositor), 0.260 (DCC) 
• R-Value Observed: 
  0.218 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of L68V mutant of human cystatin C

Orlikowska, M., Borek, D., Otwinowski, Z., Skowron, P., Szymanska, A.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 8-mer - A8 

Biological assembly 3 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 54.04 kDa 
• Atom Count: 3,592 
• Modeled Residue Count: 434 
• Deposited Residue Count: 480 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cystatin-C	A, B, C, D	120	Homo sapiens	Mutation(s): 1  Gene Names: CST3
UniProt & NIH Common Fund Data Resources
Find proteins for P01034 (Homo sapiens) Explore P01034  Go to UniProtKB:  P01034
PHAROS:  P01034 GTEx:  ENSG00000101439

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PEG	E [auth A], F [auth A], G [auth D], H [auth D], I [auth D], J [auth D]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.19 Å
• R-Value Free:  0.293 (Depositor), 0.320 (DCC) 
• R-Value Work:  0.214 (Depositor), 0.260 (DCC) 
• R-Value Observed: 0.218 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 103.123	α = 90
b = 89.876	β = 107.03
c = 65.154	γ = 90

Software Package:

Software Name	Purpose
HKL-3000	data collection
MOLREP	phasing
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-02-29 
Deposition Author(s): Orlikowska, M., Borek, D., Otwinowski, Z., Skowron, P., Szymanska, A.

Revision History  

• Version 1.0: 2012-02-29
  Type: Initial release
  
• Version 1.1: 2023-09-13
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.2: 2024-11-20
  Changes: Structure summary