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Record W2027510502 · doi:10.1371/journal.pone.0125010

A Maltose-Binding Protein Fusion Construct Yields a Robust Crystallography Platform for MCL1

2015· article· en· W2027510502 on OpenAlexfundno aff
Matthew C. Clifton, David M. Dranow, Alison Leed, Ben Fulroth, J.W. Fairman, Jan Abendroth, Kateri Atkins, Ellen Wallace, Dazhong Fan, Guoping Xu, Zuyao Ni, Douglas S. Daniels, John Van Drie, Alex B. Burgin, Todd R. Golub, Brian K. Hubbard, Michael H. Serrano‐Wu

Bibliographic record

VenuePLoS ONE · 2015
Typearticle
Languageen
FieldMaterials Science
TopicEnzyme Structure and Function
Canadian institutionsnot available
FundersWestern Economic Diversification CanadaCanadian Institutes of Health ResearchInstituto Carlos Slim de la SaludMichigan Technology Tri-CorridorOffice of ScienceNational Research Council CanadaRobertson FoundationCanadian Light SourceNatural Sciences and Engineering Research Council of CanadaArgonne National LaboratoryU.S. Department of EnergyBroad InstituteUniversity of SaskatchewanMichigan Economic Development Corporation
KeywordsMaltose-binding proteinLigand (biochemistry)Fusion proteinChemistryProtein structureCrystallizationCrystallographyComputational biologyBioinformaticsBiochemistryBiologyRecombinant DNA

Abstract

fetched live from OpenAlex

Crystallization of a maltose-binding protein MCL1 fusion has yielded a robust crystallography platform that generated the first apo MCL1 crystal structure, as well as five ligand-bound structures. The ability to obtain fragment-bound structures advances structure-based drug design efforts that, despite considerable effort, had previously been intractable by crystallography. In the ligand-independent crystal form we identify inhibitor binding modes not observed in earlier crystallographic systems. This MBP-MCL1 construct dramatically improves the structural understanding of well-validated MCL1 ligands, and will likely catalyze the structure-based optimization of high affinity MCL1 inhibitors.

Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.

How this classification was reachedexpand

Full frame machine prediction

Teacher imitation

Not calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.

metaresearch head score (Codex)0.000
metaresearch head score (Gemma)0.000
Version: metacan-v3-hybrid-931329e0061cValidation status: machine_predicted_unvalidated
Candidate categoriesnone
Consensus categoriesnone
DomainCandidate signal: none · Consensus signal: none
Study designCandidate signal: Bench or experimental · Consensus signal: Bench or experimental
GenreCandidate signal: Empirical · Consensus signal: Empirical
Teacher disagreement score0.002
Threshold uncertainty score0.007

Distilled classifier scores by category (both heads)

CategoryCodexGemma
Metaresearch0.0000.000
Meta-epidemiology (narrow)0.0000.000
Meta-epidemiology (broad)0.0000.000
Bibliometrics0.0000.000
Science and technology studies0.0000.000
Scholarly communication0.0010.000
Open science0.0010.001
Research integrity0.0000.001
Insufficient payload (model declined to judge)0.0010.001

Machine scores (provisional)

The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.

Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.

Opus teacher head0.082
GPT teacher head0.231
Teacher spread0.149 · how far apart the two teachers sit on this one work
Validation statusscore_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from it

Classification

machine, unvalidated

Machine predicted; a candidate call from one source (direct Gemma or distilled Codex), not a consensus.

The models applied no category: nothing in the taxonomy fit this work.
Study designBench or experimental
Domainnot available
GenreEmpirical

How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".

Quick stats

Citations34
Published2015
Admission routes1
Has abstractyes

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Same venuePLoS ONESame topicEnzyme Structure and FunctionFrench-language works237,207