Evidence map›Paper›PMID 33037300›Full record

ArticleScientific reports2020

The KDEL trafficking receptor exploits pH to tune the strength of an unusual short hydrogen bond.

Zhiyi Wu, Simon Newstead, Philip C Biggin

Open access · goldAbstract read
In one paragraph

Article in Scientific reports, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.

0numbers the graph read from it
0cells of the map it votes in
16citing papers in PubMed
1.1field-weighted citation impact, top 25% 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

16 citing papers in PubMed, 21 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

3 authors at 1 institution in 1 country.

Zhiyi WuDepartment of Biochemistry, South Parks Road, Oxford, OX1 3QU, UK.
Simon NewsteadDepartment of Biochemistry, South Parks Road, Oxford, OX1 3QU, UK. Simon.newstead@bioch.ox.ac.uk.
Philip C BigginDepartment of Biochemistry, South Parks Road, Oxford, OX1 3QU, UK. Philip.biggin@bioch.ox.ac.uk.
University of Oxford · GB

Funding

Wellcome TrustWellcome Trust 109133/Z/15/AWellcome Trust 203741/Z/16/ZWellcome Trust 219531/Z/19/Z
6 · The paper itself

Abstract

The endoplasmic reticulum (ER) is the main site of protein synthesis in eukaryotic cells and requires a high concentration of luminal chaperones to function. During protein synthesis, ER luminal chaperones are swept along the secretory pathway and must be retrieved to maintain cell viability. ER protein retrieval is achieved by the KDEL receptor, which recognises a C-terminal Lys-Asp-Glu-Leu (KDEL) sequence. Recognition of ER proteins by the KDEL receptor is pH dependent, with binding occurring under acidic conditions in the Golgi and release under conditions of higher pH in the ER. Recent crystal structures of the KDEL receptor in the apo and peptide bound state suggested that peptide binding drives the formation of a short-hydrogen bond that locks the KDEL sequence in the receptor and activates the receptor for COPI binding in the cytoplasm. Using quantum mechanical calculations we demonstrate that the strength of this short hydrogen bond is reinforced following protonation of a nearby histidine, providing a conceptual link between receptor protonation and KDEL peptide binding. Protonation also controls the water networks adjacent to the peptide binding site, leading to a conformational change that ultimately allows the receptor-complex to be recognized by the COPI system.

Indexed as

Binding SitesEndoplasmic ReticulumEukaryotic CellsGolgi ApparatusHistidineHydrogen BondingHydrogen-Ion ConcentrationProtein TransportQuantum TheoryReceptors, PeptideSignal TransductionHistidineKDEL receptorReceptors, Peptide

Identifiers

PMID33037300
PMCPMC7547670
OpenAlexW3092402573

What OpenQuestion holds

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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.