Evidence map›Paper›PMID 29367919›Full record

ReviewFrontiers in molecular biosciences2017

Recent Developments and Applications of the MMPBSA Method.

Changhao Wang, D'Artagnan Greene, Li Xiao, Ruxi Qi, Ray Luo

Abstract readReview
In one paragraph

Review in Frontiers in molecular biosciences, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 240 papers.

0numbers the graph read from it
0cells of the map it votes in
240citing 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

240 citing papers in PubMed.

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  12. Coordination-Driven CuAdvanced healthcare materials · 2026
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  18. Review
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180 more citing papers are in PubMed but not listed here.

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.

Changhao WangChemical and Materials Physics Graduate Program, University of California, Irvine, Irvine, CA, United States.
D'Artagnan GreeneDepartment of Molecular Biology and Biochemistry, University of California, Irvine, Irvine, CA, United States.
Li XiaoDepartment of Molecular Biology and Biochemistry, University of California, Irvine, Irvine, CA, United States.
Ruxi QiDepartment of Molecular Biology and Biochemistry, University of California, Irvine, Irvine, CA, United States.
Ray LuoChemical and Materials Physics Graduate Program, University of California, Irvine, Irvine, CA, United States.

Funding

AMBER force field consortium: a coherent biomolecular simulation platformR01GM079383 · NIGMS · UNIVERSITY OF CALIFORNIA AT DAVIS · PI CIEPLAK, PIOTR, DUAN, YONG · 2007 to 2017
$4.7M
Multi-scaled Modeling of Electrostatic and Polarization Effects in BiomoleculesR35GM130367 · NIGMS · UNIVERSITY OF CALIFORNIA-IRVINE · PI RAY LUO · 2019 to 2026
$3.0M
AMBER/PBSA: An Open-Source Computer Program for Accurate and Scalable Solvation Analysis ofBiomoleculesR01GM093040 · NIGMS · UNIVERSITY OF CALIFORNIA-IRVINE · PI LUO, RAY · 2010 to 2018
$2.2M
NIGMS NIH HHS R01 GM079383NIGMS NIH HHS R01 GM093040NIGMS NIH HHS R35 GM130367
6 · The paper itself

Abstract

The Molecular Mechanics Poisson-Boltzmann Surface Area (MMPBSA) approach has been widely applied as an efficient and reliable free energy simulation method to model molecular recognition, such as for protein-ligand binding interactions. In this review, we focus on recent developments and applications of the MMPBSA method. The methodology review covers solvation terms, the entropy term, extensions to membrane proteins and high-speed screening, and new automation toolkits. Recent applications in various important biomedical and chemical fields are also reviewed. We conclude with a few future directions aimed at making MMPBSA a more robust and efficient method.

Indexed as

binding affinitycontinuum solvation modelfree energy simulationMMPBSAmolecular recognition

Identifiers

PMID29367919
PMCPMC5768160

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.