Evidence map›Paper›PMID 24923293›Full record

ArticleNature communications2014

Structural basis for catalysis in a CDP-alcohol phosphotransferase.

Giuliano Sciara, Oliver B Clarke, David Tomasek, Brian Kloss, Shantelle Tabuso, Rushelle Byfield, Raphael Cohn, Surajit Banerjee, Kanagalaghatta R Rajashankar, Vesna Slavkovic and 3 more

Open access · bronzeAbstract read
In one paragraph

Article in Nature communications, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.

0numbers the graph read from it
0cells of the map it votes in
26citing papers in PubMed
2.3field-weighted citation impact, top 12% 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

26 citing papers in PubMed, 51 citations in OpenAlex.

  1. Review
  2. Article
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  4. Review
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  12. MENSAdb: a thorough structural analysis of membrane protein dimers.Database : the journal of biological databases and curation · 2021
    Article
  13. Mapping the Substrate-Binding Sites in the Phosphatidylserine Synthase inFrontiers in cellular and infection microbiology · 2021
    Article
  14. Article
  15. Article
  16. Mutations inAntimicrobial agents and chemotherapy · 2019
    Article
  17. Article
  18. Structure ofCommunications biology · 2019
    Article
  19. Structural basis for catalysis at the membrane-water interface.Biochimica et biophysica acta. Molecular and cell biology of lipids · 2017
    Review
  20. Lipid topogenesis--35years on.Biochimica et biophysica acta · 2016
    Review
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

13 authors at 3 institutions in 2 countries.

Giuliano Sciara1] Department of Physiology and Cellular Biophysics, Columbia University, New York, New York 10032, USA [2].
Oliver B Clarke1] Department of Biochemistry and Molecular Biophysics, Columbia University, New York, New York 10032, USA [2].
David Tomasek1] Department of Physiology and Cellular Biophysics, Columbia University, New York, New York 10032, USA [2].
Brian KlossNew York Consortium on Membrane Protein Structure, New York Structural Biology Center, 89 Convent Avenue, New York, New York 10027, USA.
Shantelle TabusoNew York Consortium on Membrane Protein Structure, New York Structural Biology Center, 89 Convent Avenue, New York, New York 10027, USA.
Rushelle ByfieldDepartment of Physiology and Cellular Biophysics, Columbia University, New York, New York 10032, USA.
Raphael CohnDepartment of Physiology and Cellular Biophysics, Columbia University, New York, New York 10032, USA.
Surajit BanerjeeDepartment of Chemistry and Chemical Biology, Cornell University, NE-CAT, Advanced Photon Source, Argonne, Illinois 60439, USA.
Kanagalaghatta R RajashankarDepartment of Chemistry and Chemical Biology, Cornell University, NE-CAT, Advanced Photon Source, Argonne, Illinois 60439, USA.
Vesna SlavkovicDepartment of Environmental Health Sciences, Mailman School of Public Health, Columbia University, New York, New York 10032, USA.
Joseph H GrazianoDepartment of Environmental Health Sciences, Mailman School of Public Health, Columbia University, New York, New York 10032, USA.
Lawrence ShapiroDepartment of Biochemistry and Molecular Biophysics, Columbia University, New York, New York 10032, USA.
Filippo ManciaDepartment of Physiology and Cellular Biophysics, Columbia University, New York, New York 10032, USA.
Columbia University · USNew York Structural Biology Center · USBiodiversité et Biotechnologie Fongiques · FR

Funding

True Metal fac coreP30ES009089 · NIEHS · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI MATTHEW S PERZANOWSKI · 1998 to 2026
$44.7M
Structural Genomics on Membrane ProteinsU54GM095315 · NIGMS · NEW YORK STRUCTURAL BIOLOGY CENTER · PI MANCIA, FILIPPO · 2010 to 2014
$15.2M
Overall EvaluationP41GM103403 · NIGMS · CORNELL UNIVERSITY · PI EALICK, STEVEN E · 2012 to 2017
$14.3M
Lipid biosynthesis and modification by integral-membrane enzymesR01GM111980 · NIGMS · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI MANCIA, FILIPPO · 2015 to 2018
$2.2M
Structural basis of phosphoinositide biosynthesis in Mycobacterium tuberculosisR21AI119672 · NIAID · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI MANCIA, FILIPPO · 2015 to 2016
$440k
NIAID NIH HHS R21 AI119672NIEHS NIH HHS P30 ES009089NIGMS NIH HHS P41 GM103403NIGMS NIH HHS R01 GM111980NIGMS NIH HHS U54 GM095315
6 · The paper itself

Abstract

The CDP-alcohol phosphotransferase (CDP-AP) family of integral membrane enzymes catalyses the transfer of a substituted phosphate group from a CDP-linked donor to an alcohol acceptor. This is an essential reaction for phospholipid biosynthesis across all kingdoms of life, and it is catalysed solely by CDP-APs. Here we report the 2.0 Å resolution crystal structure of a representative CDP-AP from Archaeoglobus fulgidus. The enzyme (AF2299) is a homodimer, with each protomer consisting of six transmembrane helices and an N-terminal cytosolic domain. A polar cavity within the membrane accommodates the active site, lined with the residues from an absolutely conserved CDP-AP signature motif (D(1)xxD(2)G(1)xxAR...G(2)xxxD(3)xxxD(4)). Structures in the apo, CMP-bound, CDP-bound and CDP-glycerol-bound states define functional roles for each of these eight conserved residues and allow us to propose a sequential, base-catalysed mechanism universal for CDP-APs, in which the fourth aspartate (D4) acts as the catalytic base.

Indexed as

AlcoholsAmino Acid MotifsAmino Acid SequenceArchaeal ProteinsArchaeoglobus fulgidusBinding SitesBiocatalysisCatalytic DomainModels, MolecularMolecular Sequence DataPhosphotransferases (Alcohol Group Acceptor)Protein Structure, TertiarySequence AlignmentAlcoholsArchaeal ProteinsPhosphotransferases (Alcohol Group Acceptor)

Identifiers

PMID24923293
PMCPMC4098843
OpenAlexW2019388860

What OpenQuestion holds

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Registered trials

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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.