3OP3 | pdb_00003op3

Crystal Structure of Cell Division Cycle 25C Protein Isoform A from Homo sapiens

• PDB DOI: https://doi.org/10.2210/pdb3OP3/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-08-31 Released: 2010-09-29 
• Deposition Author(s): Kim, Y., Weger, A., Hatzos, C., Savitsky, P., Johansson, C., Ball, L., Barr, A., Vollmar, M., Muniz, J., Weigelt, J., Arrowsmith, C.H., Edwards, A., Bountra, C., Gileadi, O., von Delft, F., Knapp, S., Joachimiak, A., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.63 Å
• R-Value Free: 
  0.218 (Depositor), 0.245 (DCC) 
• R-Value Work: 
  0.198 (Depositor), 0.219 (DCC) 
• R-Value Observed: 
  0.199 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of Cell Division Cycle 25C Protein Isoform A from Homo sapiens

Kim, Y., Weger, A., Hatzos, C., Savitsky, P., Johansson, C., Ball, L., Barr, A., Vollmar, M., Muniz, J., Weigelt, J., Arrowsmith, C.H., Edwards, A., Bountra, C., Gileadi, O., von Delft, F., Knapp, S., Joachimiak, 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)

Macromolecule Content 

• Total Structure Weight: 25.79 kDa 
• Atom Count: 1,408 
• Modeled Residue Count: 167 
• Deposited Residue Count: 216 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
M-phase inducer phosphatase 3	A	216	Homo sapiens	Mutation(s): 0  Gene Names: CDC25C EC: 3.1.3.48
UniProt & NIH Common Fund Data Resources
Find proteins for P30307 (Homo sapiens) Explore P30307  Go to UniProtKB:  P30307
PHAROS:  P30307 GTEx:  ENSG00000158402

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	B [auth A], C [auth A], D [auth A], E [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.63 Å
• R-Value Free:  0.218 (Depositor), 0.245 (DCC) 
• R-Value Work:  0.198 (Depositor), 0.219 (DCC) 
• R-Value Observed: 0.199 (Depositor) 

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 96.187	α = 90
b = 96.187	β = 90
c = 61.188	γ = 120

Software Package:

Software Name	Purpose
SBC-Collect	data collection
HKL-3000	data collection
CCP4	model building
BALBES	phasing
BUSTER	refinement
REFMAC	refinement
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
CCP4	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-09-29 
Deposition Author(s): Kim, Y., Weger, A., Hatzos, C., Savitsky, P., Johansson, C., Ball, L., Barr, A., Vollmar, M., Muniz, J., Weigelt, J., Arrowsmith, C.H., Edwards, A., Bountra, C., Gileadi, O., von Delft, F., Knapp, S., Joachimiak, A., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2010-09-29
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2019-07-17
  Changes: Data collection, Refinement description
• Version 1.3: 2019-08-14
  Changes: Data collection, Refinement description
• Version 1.4: 2023-09-06
  Changes: Data collection, Database references, Derived calculations, Refinement description