3COI | pdb_00003coi

Crystal structure of p38delta kinase

• PDB DOI: https://doi.org/10.2210/pdb3COI/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2008-03-28 Released: 2008-04-15 
• Deposition Author(s): Atwell, S., Burley, S.K., Houle, A., Ramos, A., Sauder, J.M., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.09 Å
• R-Value Free: 
  0.242 (Depositor) 
• R-Value Work: 
  0.208 (Depositor), 0.210 (DCC) 
• R-Value Observed: 
  0.208 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of p38delta kinase.

Atwell, S., Burley, S.K., Houle, A., Ramos, A., Sauder, J.M.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 40.65 kDa 
• Atom Count: 2,933 
• Modeled Residue Count: 344 
• Deposited Residue Count: 353 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitogen-activated protein kinase 13	A	353	Homo sapiens	Mutation(s): 2  Gene Names: MAPK13, PRKM13, SAPK4 EC: 2.7.11.24
UniProt & NIH Common Fund Data Resources
Find proteins for O15264 (Homo sapiens) Explore O15264  Go to UniProtKB:  O15264
PHAROS:  O15264 GTEx:  ENSG00000156711

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.09 Å
• R-Value Free:  0.242 (Depositor) 
• R-Value Work:  0.208 (Depositor), 0.210 (DCC) 
• R-Value Observed: 0.208 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.271	α = 90
b = 71.305	β = 90
c = 97.933	γ = 90

Software Package:

Software Name	Purpose
MAR345	data collection
EPMR	phasing
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-04-15 
Deposition Author(s): Atwell, S., Burley, S.K., Houle, A., Ramos, A., Sauder, J.M., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2008-04-15
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-10-25
  Changes: Refinement description
• Version 1.3: 2018-11-14
  Changes: Data collection, Structure summary
• Version 1.4: 2021-02-03
  Changes: Database references, Structure summary
• Version 1.5: 2023-08-30
  Changes: Data collection, Database references, Refinement description