8YP8 | pdb_00008yp8

Structure of the p38alpha-pepHePTPm(16-31)(V31C ) complex

PDB DOI: https://doi.org/10.2210/pdb8YP8/pdb

Classification: TRANSFERASE
Organism(s): Mus musculus, Homo sapiens
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2024-03-15 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)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.14 Å
R-Value Free:
0.216 (Depositor), 0.218 (DCC)
R-Value Work:
0.186 (Depositor), 0.193 (DCC)
R-Value Observed:
0.188 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 8YP8

This is version 1.0 of the entry. See complete history.

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.

Macromolecule Content

Total Structure Weight: 45.24 kDa
Atom Count: 3,122
Modeled Residue Count: 359
Deposited Residue Count: 395
Unique protein chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitogen-activated protein kinase 14	A	379	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
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P47811
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Tyrosine-protein phosphatase non-receptor type 7	B	16	Homo sapiens	Mutation(s): 1 EC: 3.1.3.48
UniProt & NIH Common Fund Data Resources
Find proteins for P35236 (Homo sapiens) Explore P35236 Go to UniProtKB: P35236
PHAROS: P35236 GTEx: ENSG00000143851
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P35236
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.14 Å
R-Value Free: 0.216 (Depositor), 0.218 (DCC)
R-Value Work: 0.186 (Depositor), 0.193 (DCC)
R-Value Observed: 0.188 (Depositor)

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 81.96	α = 90
b = 81.96	β = 90
c = 122.4	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2025-03-19

Deposition Author(s):

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 (Full details and data files)

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

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.