Evidence map›Paper›PMID 23981301›Full record

ArticleCellular signalling2013

Combining docking site and phosphosite predictions to find new substrates: identification of smoothelin-like-2 (SMTNL2) as a c-Jun N-terminal kinase (JNK) substrate.

Elizabeth A Gordon, Thomas C Whisenant, Michael Zeller, Robyn M Kaake, William M Gordon, Pascal Krotee, Vishal Patel, Lan Huang, Pierre Baldi, Lee Bardwell

Open access · bronzeAbstract read
In one paragraph

Article in Cellular signalling, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.

0numbers the graph read from it
0cells of the map it votes in
22citing papers in PubMed
0.6field-weighted citation impact, top 32% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

22 citing papers in PubMed, 32 citations in OpenAlex.

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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

10 authors at 1 institution in 1 country.

Elizabeth A GordonDepartment of Developmental and Cell Biology, University of California Irvine, United States; Center for Complex Biological Systems, University of California Irvine, United States.
Thomas C Whisenant
Michael Zeller
Robyn M Kaake
William M Gordon
Pascal Krotee
Vishal Patel
Lan Huang
Pierre Baldi
Lee Bardwell
University of California, Irvine · US

Funding

Univ.of Calif., Irvine Cancer Center Support GrantP30CA062203 · NCI · UNIVERSITY OF CALIFORNIA-IRVINE · PI Christine Hui · 1994 to 2026
$57.9M
Uncover Strategies Used By Biological SystemsP50GM076516 · NIGMS · UNIVERSITY OF CALIFORNIA-IRVINE · PI LANDER, ARTHUR D · 2007 to 2016
$25.1M
Biomedical Informatics Training ProgramT15LM007443 · NLM · UNIVERSITY OF CALIFORNIA-IRVINE · PI BALDI, PIERRE · 2002 to 2012
$9.3M
Proteomics of the Proteasome Interacting NetworksR01GM074830 · NIGMS · UNIVERSITY OF CALIFORNIA-IRVINE · PI HUANG, LAN · 2005 to 2022
$6.1M
Training Program in Systems Biology of DevelopmentT32HD060555 · NICHD · UNIVERSITY OF CALIFORNIA-IRVINE · PI LANDER, ARTHUR D · 2009 to 2013
$1.3M
Stochastic dynamics for multiscale biologyR01GM086883 · NIGMS · UNIVERSITY OF CALIFORNIA-IRVINE · PI MJOLSNESS, ERIC D · 2008 to 2011
$1.2M
Efficient Data Structures and Algorithms for Genomics Sequence DataR01LM010235 · NLM · UNIVERSITY OF CALIFORNIA-IRVINE · PI BALDI, PIERRE · 2010 to 2012
$507k
NCI NIH HHS P30 CA062203NCI NIH HHS P30CA062203NICHD NIH HHS T32 HD060555NICHD NIH HHS T32-HD60555NIGMS NIH HHS P50 GM076516NIGMS NIH HHS P50 GM76516NIGMS NIH HHS R01 GM074830NIGMS NIH HHS R01 GM086883NIGMS NIH HHS R01 GM74830-06A1NIGMS NIH HHS R01 GM86883NLM NIH HHS LM010235NLM NIH HHS R01 LM010235NLM NIH HHS T15 LM007443NLM NIH HHS T15LM07443
6 · The paper itself

Abstract

Specific docking interactions between mitogen-activated protein kinases (MAPKs), their regulators, and their downstream substrates, are crucial for efficient and accurate signal transmission. To identify novel substrates of the c-Jun N-terminal kinase (JNK) family of MAPKs, we searched the human genome for proteins that contained (1), a predicted JNK-docking site (D-site); and (2), a cluster of putative JNK target phosphosites located close to the D-site. Here we describe a novel JNK substrate that emerged from this analysis, the functionally uncharacterized protein smoothelin-like 2 (SMTNL2). SMTNL2 protein bound with high-affinity to multiple MAPKs including JNK1-3 and ERK2; furthermore, the identity of conserved amino acids in the predicted docking site (residues 180-193) was necessary for this high-affinity binding. In addition, purified full-length SMTNL2 protein was phosphorylated by JNK1-3 in vitro, and this required the integrity of the D-site. Using mass spectrometry and mutagenesis, we identified four D-site-dependent phosphoacceptor sites in close proximity to the docking site, at S217, S241, T236 and T239. A short peptide comprised of the SMTNL2 D-site inhibited JNK-mediated phosphorylation of the ATF2 transcription factor, showing that SMTNL2 can compete with other substrates for JNK binding. Moreover, when transfected into HEK293 cells, SMTNL2 was phosphorylated by endogenous JNK in a D-site dependent manner, on the same residues identified in vitro. SMTNL2 protein was expressed in many mammalian tissues, with a notably high expression in skeletal muscle. Consistent with the hypothesis that SMTNL2 has a function in skeletal muscle, SMTNL2 protein expression was strongly induced during the transition from myoblasts to myotubes in differentiating C2C12 cells.

Indexed as

Amino Acid SequenceAnimalsBinding SitesCell LineHEK293 CellsHumansJNK Mitogen-Activated Protein KinasesMiceMolecular Sequence DataMyoblastsPhosphoproteinsPhosphorylationSubstrate SpecificityJNK Mitogen-Activated Protein KinasesPhosphoproteinsSMTNL2 protein, humanDockingD-siteJNKMAP kinasePhosphorylationSMTNL2

Identifiers

PMID23981301
PMCPMC4132694
OpenAlexW2009385330

What OpenQuestion holds

Textmetadata
LicenceTDM
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.