3NIZ | pdb_00003niz

Cryptosporidium parvum cyclin-dependent kinase cgd5_2510 with ADP bound.

• PDB DOI: https://doi.org/10.2210/pdb3NIZ/pdb

• Classification: TRANSFERASE
• Organism(s): Cryptosporidium parvum Iowa II
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-06-16 Released: 2010-07-28 
• Deposition Author(s): Wernimont, A.K., Dong, A., Lew, J., Lin, Y.H., Hassanali, A., Arrowsmith, C.H., Edwards, A.M., Weigelt, J., Bountra, C., Bochkarev, A., Hui, R., Artz, J.D., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 
  0.256 (Depositor), 0.257 (DCC) 
• R-Value Work: 
  0.221 (Depositor), 0.223 (DCC) 
• R-Value Observed: 
  0.223 (Depositor) 

Literature

Cryptosporidium parvum cyclin-dependent kinase cgd5_2510 with ADP bound.

Wernimont, A.K., Dong, A., Lew, J., Lin, Y.H., Hassanali, A., Arrowsmith, C.H., Edwards, A.M., Weigelt, J., Bountra, C., Bochkarev, A., Hui, R., Artz, J.D.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 36.32 kDa 
• Atom Count: 2,368 
• Modeled Residue Count: 288 
• Deposited Residue Count: 311 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Rhodanese family protein	A	311	Cryptosporidium parvum Iowa II	Mutation(s): 0  Gene Names: CGD5_2510 EC: 2.7.11.23 (UniProt), 2.7.11.22 (UniProt)
UniProt
Find proteins for Q5CRJ8 (Cryptosporidium parvum (strain Iowa II)) Explore Q5CRJ8  Go to UniProtKB:  Q5CRJ8

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ADP	D [auth A]	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N
MG	B [auth A], C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free:  0.256 (Depositor), 0.257 (DCC) 
• R-Value Work:  0.221 (Depositor), 0.223 (DCC) 
• R-Value Observed: 0.223 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.337	α = 90
b = 64.337	β = 90
c = 200.039	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
BUSTER	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-07-28 
Deposition Author(s): Wernimont, A.K., Dong, A., Lew, J., Lin, Y.H., Hassanali, A., Arrowsmith, C.H., Edwards, A.M., Weigelt, J., Bountra, C., Bochkarev, A., Hui, R., Artz, J.D., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2010-07-28
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2011-11-02
  Changes: Source and taxonomy
• Version 1.3: 2017-11-08
  Changes: Refinement description
• Version 1.4: 2024-02-21
  Changes: Data collection, Database references, Derived calculations