249,906
Structures from the PDB archive

1,068,577
Computed Structure Models (CSM)

5EMV|pdb_00005emv

Crystal structure of the palmitoylated human TEAD2 transcription factor

PDB DOI: https://doi.org/10.2210/pdb5EMV/pdb

Classification: TRANSCRIPTION
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2015-11-06 Released: 2015-12-23
Deposition Author(s): Noland, C.L.,Gierke, S.,Schnier, P.D.,Murray, J.,Sandoval, W.N.,Sagolla, M.,Dey, A.,Hannoush, R.N.,Fairbrother, W.J.,Cunningham, C.N.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.231 (Depositor), 0.230 (DCC)
R-Value Work:
0.202 (Depositor), 0.210 (DCC)
R-Value Observed:
0.203 (Depositor)

Starting Model:experimental
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wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Palmitoylation of TEAD Transcription Factors Is Required for Their Stability and Function in Hippo Pathway Signaling.

Noland, C.L., Gierke, S., Schnier, P.D., Murray, J., Sandoval, W.N., Sagolla, M., Dey, A., Hannoush, R.N., Fairbrother, W.J., Cunningham, C.N.

(2016) Structure 24: 179-186

PubMed: 26724994 Search on PubMed
DOI: https://doi.org/10.1016/j.str.2015.11.005
Primary Citation of Related Structures:
5EMV,5EMW

PubMed Abstract:
The Hippo signaling pathway is responsible for regulating the function of TEAD family transcription factors in metazoans. TEADs, with their co-activators YAP/TAZ, are critical for controlling cell differentiation and organ size through their transcriptional activation of genes involved in cell growth and proliferation. Dysregulation of the Hippo pathway has been implicated in multiple forms of cancer. Here, we identify a novel form of regulation of TEAD family proteins. We show that human TEADs are palmitoylated at a universally conserved cysteine, and report the crystal structures of the human TEAD2 and TEAD3 YAP-binding domains in their palmitoylated forms. These structures show a palmitate bound within a highly conserved hydrophobic cavity at each protein's core. Our findings also demonstrate that this modification is required for proper TEAD folding and stability, indicating a potential new avenue for pharmacologically regulating the Hippo pathway through the modulation of TEAD palmitoylation.

Organizational Affiliation

Department of Structural Biology, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA.

Center for Advanced Light Microscopy, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA.

Department of Protein Chemistry, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA.

Department of Discovery Oncology, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA.

Department of Early Discovery Biochemistry, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA.

Department of Early Discovery Biochemistry, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA. Electronic address: fairbrother.wayne@gene.com.

Department of Early Discovery Biochemistry, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA. Electronic address: cunningham.christian@gene.com.

Macromolecule Content

Total Structure Weight: 53.88 kDa
Atom Count: 3,437
Modeled Residue Count: 398
Deposited Residue Count: 472
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transcriptional enhancer factor TEF-4	A,B	236	Homo sapiens	Mutation(s): 0 Gene Names: TEAD2, TEF4
UniProt & NIH Common Fund Data Resources
Find proteins for Q15562 (Homo sapiens) Explore Q15562 Go to UniProtKB: Q15562
PHAROS: Q15562 GTEx: ENSG00000074219
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q15562
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
P1L Query on P1L	A, B	L-PEPTIDE LINKING	C₁₉ H₃₇ N O₃ S		CYS

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.231 (Depositor), 0.230 (DCC)
R-Value Work: 0.202 (Depositor), 0.210 (DCC)
R-Value Observed: 0.203 (Depositor)

Space Group: I 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 79.83	α = 90
b = 61.25	β = 101.89
c = 112.672	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction

Structure Validation

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Entry History

Deposition Data

Released Date: 2015-12-23

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2015-12-23
Type: Initial release
Version 1.1: 2016-01-20
Changes: Database references
Version 1.2: 2023-09-27
Changes: Data collection, Database references, Derived calculations, Refinement description