José Daniel Mahecha-Ortíz , Sergio Enríquez-Flores , Ignacio De la Mora De la Mora , Luis A. Flores-López , Pedro Gutierrez-Castrellón , Gabriel López-Velázquez , Ruth Sánchez-Mora , Itzhel García-Torres
{"title":"In silico design of ankyrin repeat proteins that bind to the insulin-like growth factor type 1 receptor","authors":"José Daniel Mahecha-Ortíz , Sergio Enríquez-Flores , Ignacio De la Mora De la Mora , Luis A. Flores-López , Pedro Gutierrez-Castrellón , Gabriel López-Velázquez , Ruth Sánchez-Mora , Itzhel García-Torres","doi":"10.1016/j.jmgm.2025.109055","DOIUrl":"10.1016/j.jmgm.2025.109055","url":null,"abstract":"<div><div>Ankyrins are proteins widely distributed in nature that mediate protein‒protein interactions. Owing to their outstanding stability and ability to recognize targets, ankyrins have been used as therapeutic and diagnostic tools in several diseases, including cancer. Insulin-like growth factor type 1 receptor (IGF-1R) is overexpressed in a variety of cancers, making it an attractive molecular target<strong>.</strong> Advances in anticancer treatment have focused on inhibiting the binding between IGF-1R and its natural ligand, IGF1. In this work, three ankyrins were designed to interact with IGF-1R, and molecular models using AlphaFold were generated. The designed ankyrin sequences included amino acids of IGF1 that recognize IGF-1R: a two-module ankyrin (DAN2SON), a loop ankyrin (Loop-DAN2SON) and a bispecific ankyrin (BI-DAN2SON-D1). Models with the best results from the predicted local distance difference test and predicted assigned error values were used to perform rigid binding tests with the ClusPro server. The best complexes were selected based on the binding energies. Further analysis of the interactions was performed with the PDBsum server. The three IGF1-R complexes showed negative free binding energies, indicating that the binding of these proteins could be energetically favorable. Molecular binding assays revealed that DAN2SON and Loop-DAN2SON bind to IGF-1R at the natural ligand binding site via hydrogen bonds and salt bridge interactions. This work shows that using artificial intelligence to generate protein models allows prediction of interactions between ankyrins and the IGF-1R, to be confirmed in subsequent studies using both in <em>vitro</em> and <em>in vivo</em> models.</div></div>","PeriodicalId":16361,"journal":{"name":"Journal of molecular graphics & modelling","volume":"139 ","pages":"Article 109055"},"PeriodicalIF":2.7,"publicationDate":"2025-04-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143873802","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"How a mixture of urinary human serum albumin fragments survives in urine-mimicking pH conditions: Simulation studies","authors":"Chanya Archapraditkul , Deanpen Japrung , Prapasiri Pongprayoon","doi":"10.1016/j.jmgm.2025.109051","DOIUrl":"10.1016/j.jmgm.2025.109051","url":null,"abstract":"<div><div>One of effective indicators for screening and tracking kidney and diabetic disorders is the microalbuminuria level. The fresh urine is required for effectively measuring a microalbuminuria level. The presence of urinary proteases leads to the albumin fragmentation which can interfere the results. Some albumin fragments are reported to be potential clinical biomarkers where their chemistry in urine is incompletely understood. This information is crucial for the effective detection of urinary albumin fragments. Recently, nine fragmented albumins (F1-F9) were identified in urine where no structural and dynamic information is available. Thus, in this work, the structural and dynamic properties of the F1-F9 aqueous mixture at urine pHs (pH 4.5, 7, and 8) are studied. Molecular Dynamics (MD) simulations are performed to understand the behaviour of fragmented albumin mixture in a molecular level. The spontaneous fragment aggregation is captured at all pHs where the complete aggregation is only found at pH 7 and 8. No specific aggregation mechanism is identified. The formation of fragment aggregate is driven by electrostatic interactions. Most fragments are unfolded. F8 is found to be the most stable fragment. F8 and other fragments are suggested to be potential disease biomarkers. The fragment aggregation found here can thus reduce the detection efficacy of urinary albumin fragments in a sample. The knowledge obtained here will be useful for urinary albumin detection, sample stability, and proteomic analysis of urine.</div></div>","PeriodicalId":16361,"journal":{"name":"Journal of molecular graphics & modelling","volume":"138 ","pages":"Article 109051"},"PeriodicalIF":2.7,"publicationDate":"2025-04-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143860574","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"DFT insights into assembling [8]MCPP with [14]pyridine nanobelts for amino acid sensing","authors":"Ahmad Khaleel AlOmari","doi":"10.1016/j.jmgm.2025.109056","DOIUrl":"10.1016/j.jmgm.2025.109056","url":null,"abstract":"<div><div>The progress in designing nanoscale electronic sensors for detecting amino acids (AAs) has attracted considerable interest due to their ability to enable label-free and real-time detection. In this study, the [14]pyridine@[8]MCPP system formed by assembling [8]cycloparaphenylene ([8]MCPP) with [14]pyridine methylene-bridged nanobelts was investigated using density functional theory (DFT) calculations as a potential sensor for five amino acids: glycine (Gly), alanine (Ala), threonine (Thr), leucine (Leu), and aspartic acid (Asp). The sensing capabilities of the assembled structure were evaluated through various analyses, including frontier molecular orbital (FMO), density of states (DOS), quantum theory of atoms in molecules (QTAIM), non-covalent interactions (NCI), and electron density difference (EDD). The energy gap of the [14]pyridine@[8]MCPP assembly was influenced by the presence of amino acids, with the most significant change (−8.75 %) observed in the [14]pyridine@[8]MCPP/Asp complex. Furthermore, QTAIM and NCI analyses indicated that the interactions between AAs and the [14]pyridine@[8]MCPP assembly are primarily governed by van der Waals (vdW) forces. The short recovery times (3.47 × 10<sup>−10</sup> to 1.27 × 10<sup>−6</sup> s) and favorable sensor responses (0.09–0.17) of the [14]pyridine@[8]MCPP/AA complexes at 298 K suggest that this assembly could serve as an effective material for detecting amino acids. These findings underscore the potential of assembled nanostructures as valuable candidates for amino acid sensing applications.</div></div>","PeriodicalId":16361,"journal":{"name":"Journal of molecular graphics & modelling","volume":"138 ","pages":"Article 109056"},"PeriodicalIF":2.7,"publicationDate":"2025-04-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143864716","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Interpretable machine learning and graph attention network based model for predicting PAMPA permeability","authors":"Upashya Parasar , Orchid Baruah , Debasish Saikia , Pankaj Bharali , Hridoy Jyoti Mahanta","doi":"10.1016/j.jmgm.2025.109050","DOIUrl":"10.1016/j.jmgm.2025.109050","url":null,"abstract":"<div><div>Parallel artificial membrane permeability assay (PAMPA) is widely used in the early phases of drug discovery as it is quite robust and offers high throughput. It serves as a platform for assessing the permeability and absorption of pharmaceutical compounds across lipid membranes. This study uses machine learning (Random forest or RF, Explainable boosting machine or EBM and Adaboost) and deep learning (Graph attention network or GAT) to build models to predict PAMPA permeability. A curated dataset of 5447 compounds with PAMPA permeability scores (in a scale 10<sup>−6</sup> cm/s) was used to train and validate these models. During validation it was observed that, RF and EBM models could predict with an accuracy of 81 % and 80 % respectively, whereas with Adaboost and GAT, the accuracies were limited 76 % and 74 % respectively. Further, an external dataset was used to screen the predictive capability of these models and results showed that RF, EBM and Adaboost had quite similar accuracies with 91 %, 90 % and 89 % respectively. Interestingly, with this external dataset, the GAT-based model also reached a significant accuracy of 86 %. The overall results show that all the models in this study could well predict PAMPA permeability over the benchmark and covering diverse chemical space. All the datasets and codes for developing these models have been deposited on the GitHub platform (<span><span>https://github.com/hridoy69/pampa_premeability</span><svg><path></path></svg></span>).</div></div>","PeriodicalId":16361,"journal":{"name":"Journal of molecular graphics & modelling","volume":"138 ","pages":"Article 109050"},"PeriodicalIF":2.7,"publicationDate":"2025-04-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143833245","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Chaochun Wei , Cuicui Ji , Keli Zong , Xiaokun Zhang , Qidi Zhong , Hong Yan , Juan Wang
{"title":"Identification of novel inhibitors targeting EGFR L858R/T790M/C797S against NSCLC by molecular docking, MD simulation, and DFT approaches","authors":"Chaochun Wei , Cuicui Ji , Keli Zong , Xiaokun Zhang , Qidi Zhong , Hong Yan , Juan Wang","doi":"10.1016/j.jmgm.2025.109052","DOIUrl":"10.1016/j.jmgm.2025.109052","url":null,"abstract":"<div><div>The resistance of growth factor receptor tyrosine kinase inhibitors (EGFR-TKIs) in non-small cell lung cancer (NSCLC), especially against the EGFR L858R/T790M/C797S mutations, remains an ongoing challenge. In this study, we screened a total of 2.05 million compounds from the ChEMBL database through virtual screening, identifying five promising candidates with high binding affinities and favourable ADMET properties. These candidates were further evaluated through molecular dynamics (MD) simulations, revealing more restricted conformational changes and enhanced stability compared to <strong>Osimertinib</strong>. Protein-ligand interaction analyses highlighted a broader range of stabilizing interactions in the binding domain. Additionally, the binding free energies of the compounds showed that compounds <strong>1</strong>–<strong>5</strong> ranged from −34.95 to −45.54 kcal/mol, which were lower compared to <strong>Osimertinib</strong> (−34.49 kcal/mol), suggesting a stronger binding affinity. Subsequently, density functional theory (DFT) calculations provided further insights into the electronic properties of the compounds, which were essential for understanding the compounds' reactivity and potential interactions with the target protein. In conclusion, the five identified compounds exhibit promising drug-like properties and may serve as lead candidates for the development of new treatments targeting EGFR L858R/T790M/C797S resistance mutations in NSCLC.</div></div>","PeriodicalId":16361,"journal":{"name":"Journal of molecular graphics & modelling","volume":"138 ","pages":"Article 109052"},"PeriodicalIF":2.7,"publicationDate":"2025-04-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143829634","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Mechanistic insights on the antioxidant activity of selected neurotransmitters","authors":"J. Sharanya , M.P. Kritik Shai , Deepa Janardanan","doi":"10.1016/j.jmgm.2025.109054","DOIUrl":"10.1016/j.jmgm.2025.109054","url":null,"abstract":"<div><div>Antioxidant activity of neurotransmitters such as dopamine, serotonin, and octopamine are studied employing density functional theory at the M062X/6-311+G∗∗ level. The hydroperoxyl radical scavenging activity of these molecules is evaluated based on thermodynamic and kinetic calculations in the gas phase as well as in solvents that mimic physiological environments. The HAT mechanism is predicted to be favored in the gas phase, whereas the SPLET mechanism is preferred in water as well as in the lipid medium. Antioxidant activity of these molecules is attributed to the presence of phenolic OH groups. Dopamine is found to be the most active antioxidant in gas as well as polar medium, whereas Serotonin exhibited higher reactivity in the lipid medium. It is identified that the nature of the environment influences the antioxidant activity of these molecules. H-bonding interaction involving the vicinal OH group of the phenoxide radical is identified to be crucial towards stabilizing the radical generated from the D2 site of dopamine, making it the most reactive site of radical attack as per the HAT mechanism. Kinetic calculations of the HAT mechanism suggest that the D2 site of dopamine has the highest rate constant both in the gas phase (1.32 × 10<sup>6</sup> L mol<sup>−1</sup> s<sup>−1</sup>) as well as in aqueous medium (9.11 × 10<sup>3</sup> L mol<sup>−1</sup> s<sup>−1</sup>), whereas the S1 site of serotonin is predicted to be the most feasible site of attack in the lipid medium (2.15 × 10<sup>5</sup> L mol<sup>−1</sup> s<sup>−1</sup>). Octopamine is found to be the least reactant molecule among the three.</div></div>","PeriodicalId":16361,"journal":{"name":"Journal of molecular graphics & modelling","volume":"138 ","pages":"Article 109054"},"PeriodicalIF":2.7,"publicationDate":"2025-04-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143860573","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Designing novel potent oxindole derivatives as VEGFR2 inhibitors for cancer therapy: Computational insights from molecular docking, drug-likeness, DFT, and structural dynamics studies","authors":"Sowmiya Perinbaraj , Manikandan Jayaraman , Jeyakanthan Jeyaraman , Konda Reddy Girija","doi":"10.1016/j.jmgm.2025.109049","DOIUrl":"10.1016/j.jmgm.2025.109049","url":null,"abstract":"<div><div>Oxindole is a γ-lactam featuring a heterocyclic core, combining pyrrole and benzene rings with a carbonyl group at the second position. This scaffold is present in numerous bioactive compounds, both natural and synthetic, and has emerged as a privileged pharmacophore in medicinal chemistry due to its broad biological activity. Substitution at the 3-position of the 2-oxindole structure has been shown to enhance potency and selectivity, especially in anticancer drug development. Breast cancer, a prevalent and challenging disease affecting millions of women worldwide, underscores an urgent need for more effective treatments. Current therapies often exhibit limited efficacy, significant side effects, and resistance issues, highlighting the demand for novel drugs with improved safety profiles. This study focuses on vascular endothelial growth factor receptor-2 (VEGFR-2), an essential regulator of tumor angiogenesis, as a potential target for breast cancer therapy. Through molecular docking-based virtual screening of 360 designed oxindole derivatives, three compounds (BIATAM, CIHTAM, and IATAM) were identified as potential candidates, each demonstrating high docking scores (>7 kcal/mol) and favorable interactions, including hydrogen bonding, hydrophobic contacts, and stacking. Among these, BIATAM emerged as the lead compound due to its superior docking performance, favorable pharmacokinetic profiles, and compliance with Lipinski's Rule of Five. Density functional theory (DFT) calculations confirmed its chemical stability, while molecular dynamics simulations (MDS) revealed high structural stability. Principal component-based free energy landscape (FEL) analysis highlighted limited conformational flexibility, and MM/PBSA-based binding energy calculations reinforced its strong affinity within the VEGFR-2 binding pocket. These comprehensive computational findings suggest that BIATAM holds promising potential as a novel therapeutic option for treating breast cancer.</div></div>","PeriodicalId":16361,"journal":{"name":"Journal of molecular graphics & modelling","volume":"138 ","pages":"Article 109049"},"PeriodicalIF":2.7,"publicationDate":"2025-04-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143829612","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Structure based prediction of selective MraY inhibitors","authors":"Sonali Chavan, Thomas Olsson, Gunnar Nyman","doi":"10.1016/j.jmgm.2025.109053","DOIUrl":"10.1016/j.jmgm.2025.109053","url":null,"abstract":"<div><div>Antibiotic resistance is becoming a growing concern of public health and hence there is an increasing demand for developing better antibiotic strategies. One such strategy includes targeting the bacterial cell wall, thereby killing the bacteria. A bacterial transmembrane enzyme MraY (Phospho-N-acetylmuramoyl-pentapeptide translocase), is considered to be a promising target for developing new antibiotics since it is involved in cell wall synthesis. Tunicamycin is an antibiotic known to inhibit the function of MraY. However, it shows cross-reactivity with the structurally homologous human enzyme hGPT (GlcNAc-1-P-transferase), which therefore calls for antibiotics with MraY selectivity. In the present computational work, we identified selective MraY inhibitors, where virtual screening of 45,411 compounds was carried out, followed by molecular dynamics simulations to check the stability of key inhibitory interactions across MraY and hGPT. From five shortlisted tentative inhibitors, comparative structural interaction analysis for both MraY and hGPT suggested three compounds as potential selective MraY inhibitors.</div></div>","PeriodicalId":16361,"journal":{"name":"Journal of molecular graphics & modelling","volume":"138 ","pages":"Article 109053"},"PeriodicalIF":2.7,"publicationDate":"2025-04-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143829611","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Heba Nawfal Al Araji , Ehab Yassen Theab , Shirin Shomurotova , Prakash Kanjariya , Asha Rajiv , Aman Shankhyan , Helen Merina Albert , Harish Kumar , Maher Ali Rusho , Ahmed M. Naglah
{"title":"Drug delivery mechanism of isoniazid drug on Tetragonal aluminum nitride by DFT study","authors":"Heba Nawfal Al Araji , Ehab Yassen Theab , Shirin Shomurotova , Prakash Kanjariya , Asha Rajiv , Aman Shankhyan , Helen Merina Albert , Harish Kumar , Maher Ali Rusho , Ahmed M. Naglah","doi":"10.1016/j.jmgm.2025.109048","DOIUrl":"10.1016/j.jmgm.2025.109048","url":null,"abstract":"<div><div>The current work employed DFT simulations to investigate both the reactivity and sensitivity of tetragonal aluminum nitride (T-AlN) as a nanocarrier towards isoniazid (INZ). The solvation effect, workfunction, quantum molecular descriptors (e.g., global softness), charge transports, and adhesion behaviour were analyzed to study the interactions between T-AlN and INZ. The adhesion of INZ onto T-AlN was robust. The adhesion energy in the aqueous phase was −21.89 kcal/mol and it was −40.56 in the gaseous phase. Based on the charge transport analyses, there was substantial charge transport throughout the adhesion. Also, there was a reduction of 59.32 % in the bandgap values for T-AlN following INZ attachment. Furthermore, the workfunction values and NBO analyses suggested that T-AlN can function as a promising nanocarrier for INZ. Additionally, the electronic attributes of T-AlN exhibited strong sensitivity towards the INH molecules. So, it is possible to use T-AlN for biosensing purposes and for tracing drugs through spectrophotometric methods in the human body.</div></div>","PeriodicalId":16361,"journal":{"name":"Journal of molecular graphics & modelling","volume":"138 ","pages":"Article 109048"},"PeriodicalIF":2.7,"publicationDate":"2025-04-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143824348","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Delivery of cisplatin confined into pure and doped C240 fullerene: A molecular dynamics simulation study","authors":"Mohammad Javad Soleymani , Mohsen Abbaspour , Hamed Akbarzadeh , Sirous Salemi","doi":"10.1016/j.jmgm.2025.109047","DOIUrl":"10.1016/j.jmgm.2025.109047","url":null,"abstract":"<div><div>In this research, we have investigated the delivery of cisplatin, as the anti-cancer drug molecule encapsulated into C240 fullerene with maximum equal number of water and carbon dioxide molecules (20H<sub>2</sub>O+20CO<sub>2</sub>) by continuously increasing the temperature from 310 to 450 K. We have determined the temperature at which the fullerene broke and the drug molecule released into the outer environment. To examine the effect of B, N, and Si doping of C<sub>240</sub> fullerene on the bond break and release temperatures, we have also simulated the 20H2O+20CO2 mixture into 3 % doped (C<sub>233</sub>B<sub>7</sub>, C<sub>233</sub>N<sub>7</sub>, and C<sub>233</sub>Si<sub>7</sub>) and 20 % doped (C<sub>192</sub>B<sub>48</sub>, C<sub>192</sub>N<sub>48</sub>, and C<sub>192</sub>Si<sub>48</sub>) fullerenes at the same temperature range. Our results showed that there is not any bond break and consequently the drug release for the pure fullerene containing 20H<sub>2</sub>O+20CO<sub>2</sub> mixture at any temperature. It is also observed that the N-doped fullerene shows less resistance to the breakdown, especially the C<sub>192</sub>N<sub>48</sub> fullerene. Therefore, this N-doped C<sub>192</sub>N<sub>48</sub> fullerene is more proper compound to use in the nano drug delivery investigations using fullerene. It is also shown that the doping fullerene is a proper way to easily destruct its structure to use in the drug delivery applications. It is also shown that the self-diffusion of the cisplatin molecule is higher in the C<sub>192</sub>N<sub>48</sub> fullerene than the other systems. This result is in agreement with the other results and approves the C<sub>192</sub>N<sub>48</sub> fullerene for the drug delivery purpose.</div></div>","PeriodicalId":16361,"journal":{"name":"Journal of molecular graphics & modelling","volume":"138 ","pages":"Article 109047"},"PeriodicalIF":2.7,"publicationDate":"2025-04-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143829610","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}