8YPE | pdb_00008ype

The crystal structure of inactive p38 complexed with a ATF2 from 46 to 80

• PDB DOI: https://doi.org/10.2210/pdb8YPE/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens, Mus musculus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-03-16 Released: 2025-03-19 
• Deposition Author(s): Zhang, Y.Y., Pei, C.J., He, Q.Q., Luo, Z.P., Wu, J.W., Wang, Z.X.
• Funding Organization(s): Ministry of Science and Technology (MoST, China)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 
  0.225 (Depositor), 0.225 (DCC) 
• R-Value Work: 
  0.197 (Depositor), 0.197 (DCC) 
• R-Value Observed: 
  0.198 (Depositor) 

Starting Model: experimental

Literature

Structural and mechanistic insights into the allosteric activation of p38alpha MAP kinase via specific docking interactions

Zhang, Y.Y., Pei, C.J., He, Q.Q., Luo, Z.P., Wu, J.W., Wang, Z.X.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 45.59 kDa 
• Atom Count: 3,130 
• Modeled Residue Count: 351 
• Deposited Residue Count: 397 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cyclic AMP-dependent transcription factor ATF-2	A [auth B]	35	Homo sapiens	Mutation(s): 0  Gene Names: ATF2, CREB2, CREBP1
UniProt & NIH Common Fund Data Resources
Find proteins for P15336 (Homo sapiens) Explore P15336  Go to UniProtKB:  P15336
PHAROS:  P15336 GTEx:  ENSG00000115966

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitogen-activated protein kinase 14	B [auth A]	362	Mus musculus	Mutation(s): 0  Gene Names: Mapk14, Crk1, Csbp1, Csbp2 EC: 2.7.11.24
UniProt
Find proteins for P47811 (Mus musculus) Explore P47811  Go to UniProtKB:  P47811

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free:  0.225 (Depositor), 0.225 (DCC) 
• R-Value Work:  0.197 (Depositor), 0.197 (DCC) 
• R-Value Observed: 0.198 (Depositor) 

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 82.254	α = 90
b = 82.254	β = 90
c = 123.149	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-03-19 
Deposition Author(s): Zhang, Y.Y., Pei, C.J., He, Q.Q., Luo, Z.P., Wu, J.W., Wang, Z.X.

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Funding Organization	Location	Grant Number
Ministry of Science and Technology (MoST, China)	China	2019YFA0802500
Ministry of Science and Technology (MoST, China)	China	2022YFA0806504

Revision History  

• Version 1.0: 2025-03-19
  Type: Initial release