ReviewBiochimica et biophysica acta2012
Computational studies of membrane proteins: models and predictions for biological understanding.
Review in Biochimica et biophysica acta, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
What it found
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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.
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.
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Who cites it
18 citing papers in PubMed, 48 citations in OpenAlex.
- Challenges of Protein-Protein Docking of the Membrane Proteins.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Article
- GLTM: A Global-Local Attention LSTM Model to Locate Dimer Motif of Single-Pass Membrane Proteins.Frontiers in genetics · 2022Article
- Molecular mechanism of thiamine pyrophosphate import into mitochondria: a molecular simulation study.Journal of computer-aided molecular design · 2021Article
- GeTFEP: A general transfer free energy profile of transmembrane proteins.Protein science : a publication of the Protein Society · 2020Article
- An In Silico Approach for Assessment of the Membrane Transporter Activities of Phenols: A Case Study Based on Computational Models of Transport Activity for the Transporter Bilitranslocase.Molecules (Basel, Switzerland) · 2019Article
- Structural Perspective on Revealing and Altering Molecular Functions of Genetic Variants Linked with Diseases.International journal of molecular sciences · 2019Review
- Computational Approaches for Revealing the Structure of Membrane Transporters: Case Study on Bilitranslocase.Computational and structural biotechnology journal · 2017Review
- Stability of an amphipathic helix-hairpin surfactant peptide in liposomes.Biochimica et biophysica acta · 2016Article
- Outer Membrane Protein Folding and Topology from a Computational Transfer Free Energy Scale.Journal of the American Chemical Society · 2016Article
- Determining the N-terminal orientations of recombinant transmembrane proteins in the Escherichia coli plasma membrane.Scientific reports · 2015Article
- Converting the yeast arginine can1 permease to a lysine permease.The Journal of biological chemistry · 2014Article
- Article
- Weakly stable regions and protein-protein interactions in beta-barrel membrane proteins.Current pharmaceutical design · 2014Review
- Article
- Article
- Engineered oligomerization state of OmpF protein through computational design decouples oligomer dissociation from unfolding.Journal of molecular biology · 2012Article
- Transmembrane signaling and assembly of the cytochrome b6f-lipidic charge transfer complex.Biochimica et biophysica actaReview
Corrections and comments
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
Abstract
We discuss recent progresses in computational studies of membrane proteins based on physical models with parameters derived from bioinformatics analysis. We describe computational identification of membrane proteins and prediction of their topology from sequence, discovery of sequence and spatial motifs, and implications of these discoveries. The detection of evolutionary signal for understanding the substitution pattern of residues in the TM segments and for sequence alignment is also discussed. We further discuss empirical potential functions for energetics of inserting residues in the TM domain, for interactions between TM helices or strands, and their applications in predicting lipid-facing surfaces of the TM domain. Recent progresses in structure predictions of membrane proteins are also reviewed, with further discussions on calculation of ensemble properties such as melting temperature based on simplified state space model. Additional topics include prediction of oligomerization state of membrane proteins, identification of the interfaces for protein-protein interactions, and design of membrane proteins. This article is part of a Special Issue entitled: Protein Folding in Membranes.
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What OpenQuestion holds
Registered trials
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.