MAPK variant effect atlas

Proteins Interactions

Proteins / SHP2 / interface with CD28

SHP2 – CD28

PDB PDB 7PPN (chains A/B) supported · 1 of 1 complexes SHP2 volcano ↗

Colour SHP2 (chain A) by

Interface statistics (basal)

Merged point of Fig. 6c,d: median Cohen's d of the complexes below; q is the BH-FDR of their geometric-mean p. A complex is supported at q < 0.05 and |d| ≥ 0.2. 3 interface and 90 control positions in the structure shown.

Structure shown: source

Experimental structure PDB 7PPN · X-ray, 1.90 Å · chains A/B
SHP2 catalytic domain in complex with CD28 (183-198) phosphopeptide (pTyr-191, p-Thr-195)
Primary citation: Zeke et al., Nat Commun 13 (2022)
RCSB Protein Data Bank (Berman et al., Nucleic Acids Res. 2000); the two chains were extracted and renumbered to UniProt (SIFTS) for this analysis.

Complexes merged into this interface

PDB 7PPN (chains A/B) (shown)

Residue

Click a residue in the viewer.

Created by Sriram Pendyala with help from Claude Opus (Anthropic), based on the paper by Jessica J. Simon*, Sriram Pendyala*, …, Dustin J. Maly, Douglas M. Fowler (*equal contribution; preprint coming soon).

Code: GitHub (FowlerLab/MAPK-LABEL-seq) · Data: Zenodo (doi:10.5281/zenodo.23121367). Structures: RCSB PDB, Predictomes (AlphaFold-Multimer), Zhang et al. 2025 (RoseTTAFold2-PPI).