Evidence map›Paper›PMID 39938866›Full record

ReviewMolecules and cells2025

Recent advances and future challenges in predictive modeling of metalloproteins by artificial intelligence.

Soohyeong Kim, Wonseok Lee, Hugh I Kim, Min Kyung Kim, Tae Su Choi

Abstract readReview
In one paragraph

Review in Molecules and cells, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing papers in PubMed
–field-weighted citation impact
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

5 citing papers in PubMed.

  1. Article
  2. Metal Ion Binding of Vimentin Tail Domain Fragments.Chembiochem : a European journal of chemical biology · 2026
    Article
  3. Article
  4. Observational
  5. AlphaFold3: An Overview of Applications and Performance Insights.International journal of molecular sciences · 2025
    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

5 authors.

Soohyeong KimDepartments of Chemistry, Korea University, Seoul 02841, Republic of Korea.
Wonseok LeeDivision of Life Sciences, Korea University, Seoul 02841, Republic of Korea.
Hugh I KimDepartments of Chemistry, Korea University, Seoul 02841, Republic of Korea.
Min Kyung KimCollege of Pharmacy, Gachon University, Incheon 21936, Republic of Korea.
Tae Su ChoiDivision of Life Sciences, Korea University, Seoul 02841, Republic of Korea. Electronic address: choitaesu@korea.ac.kr.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Metal coordination is essential for structural/catalytic functions of metalloproteins that mediate a wide range of biological processes in living organisms. Advances in bioinformatics have significantly enhanced our understanding of metal-binding sites and their functional roles in metalloproteins. State-of-the-art computational models developed for metal-binding sites seamlessly integrate protein sequence and structural data to unravel the complexities of metal coordination environments. Our goal in this mini-review is to give an overview of these tools and highlight the current challenges (predicting dynamic metal-binding sites, determining functional metalation states, and designing intricate coordination networks) remaining in the predictive models of metal-binding sites. Addressing these challenges will not only deepen our knowledge of natural metalloproteins but also accelerate the development of artificial metalloproteins with novel and precisely engineered functionalities.

Indexed as

Artificial IntelligenceMetalloproteinsBinding SitesComputational BiologyHumansMetalsModels, MolecularMetalloproteinsMetalsAlphaFoldArtificial MetalloproteinMetal3DMetalloenzymeRosettaFold

Identifiers

PMID39938866
PMCPMC11919430

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.