Yuebin Zhang

Dalian Institute of Chemical Physics

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Guohui Li

Chinese Academy of Sciences

Duote Cai

Children's Hospital of Zhejiang University

Zhigang Gao

Children's Hospital of Zhejiang University

Qingjiang Chen

Children's Hospital of Zhejiang University

Yi Jin

Yanbian University

Huiying Chu

Dalian Institute of Chemical Physics

Ken Chen

The University of Texas MD Anderson Cancer Center

Zongwei Huang

Fujian Provincial Cancer Hospital

Qixing Xiong

Children's Hospital of Zhejiang University

Wenjuan Luo

Children's Hospital of Zhejiang University

Cooperative Institutions

Chinese Academy of Sciences

162

University of Chinese Academy of Sciences

Shanghai Jiao Tong University

Chinese Academy of Medical Sciences & Peking Union Medical College

Children's Hospital of Zhejiang University

Peking University

Zhejiang University

Tsinghua University

Dalian Institute of Chemical Physics

Chinese Academy of Agricultural Sciences

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Investigation Into Efficiency of a Novel Glycol Chitosan–Bestatin Conjugate to Protect Thymopoietin Oligopeptides From Enzymatic Degradation

Journal of Pharmaceutical Sciences (2015)

Yong Zhang Feng Jiao Lili Cui Yuebin Zhang Wenzhao Li

Conjugate

Oligopeptide

10.1002/jps.24567

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Citations (6)

Primary response of the sGC heme binding domain to the cleavage of the Fe-His bond

Bioinformation (2008)

Huali Zhang Ming Lu Yuebin Zhang Zhengqiang Li

Soluble guanylate cyclase (sGC) is an important heme sensor protein.Regulation of the status of heme in the heme binding domain (or HNOX domain) by various gaseous activators can increase the catalytic efficiency of the cyclase domain.Several studies have demonstrated that the full activation of sGC is directly related to the cleavage of the Fe-His bond of the HNOX domain.To expand the primary response of the sGC HNOX domain to the cleavage event, a structural model of the sGC HNOX domain was constructed using homology modeling and the Fe-His bond was released at 6 ns of a 10-ns molecular dynamics simulation.An instant increment of Cα-RMSD over L2 (Loop2, residues 124-130) was found after the cleavage of the Fe-His bond, which was consistent with the principle component analysis (PCA).The energy analysis results suggest that the motions of L2 are energetic.Based on the results, energetic conformational transformation of L2 is identified as the primary response of the sGC HNOX domain to the cleavage of the Fe-His bond.

Cleavage (geology)

Bond cleavage

10.6026/97320630002296

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Citations (4)

Robotic-assisted Partial Splenectomy

Zhigang Gao Yuebin Zhang

In recent years, with the research progress of spleen immune function, more and more scholars began to pay attention to the immune function of spleen, especially in teenagers and children, and the requirements of spleen preserving surgery in clinic are increasingly high. Compared with total splenectomy, partial splenectomy has the advantage of avoiding the risk of infection and thrombosis after total splenectomy, and the disadvantage is increased risk of perioperative bleeding. The anatomical operation of partial splenectomy is more complicated, and the intraoperative bleeding is easy to affect the operation, so the technical and experience requirements of the operator are higher.

Disadvantage

10.1007/978-981-19-9693-1_14

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Citations (0)

Computer Simulations to Explore Membrane Organization and Transport

Springer eBooks (2017)

Huiying Chu Yuebin Zhang Yan Li Guohui Li

Microsecond

Nanosecond

Folding (DSP implementation)

10.1007/978-981-10-6823-2_12

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Citations (2)

Structural insights into the oligomeric effects on catalytic activity of a decameric feruloyl esterase and its application in ferulic acid production

International Journal of Biological Macromolecules (2023)

Guoming Du Yulu Wang Yuebin Zhang Haiyan Yu Shujun Liu

Catalytic triad

Esterase

Protein quaternary structure

Arabinoxylan

Catalytic efficiency

10.1016/j.ijbiomac.2023.126540

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Citations (2)

Free energy simulations with the AMOEBA polarizable force field and metadynamics on GPU platform

Journal of Computational Chemistry (2015)

Xiangda Peng Yuebin Zhang Huiying Chu Guohui Li

The free energy calculation library PLUMED has been incorporated into the OpenMM simulation toolkit, with the purpose to perform enhanced sampling MD simulations using the AMOEBA polarizable force field on GPU platform. Two examples, (I) the free energy profile of water pair separation (II) alanine dipeptide dihedral angle free energy surface in explicit solvent, are provided here to demonstrate the accuracy and efficiency of our implementation. The converged free energy profiles could be obtained within an affordable MD simulation time when the AMOEBA polarizable force field is employed. Moreover, the free energy surfaces estimated using the AMOEBA polarizable force field are in agreement with those calculated from experimental data and ab initio methods. Hence, the implementation in this work is reliable and would be utilized to study more complicated biological phenomena in both an accurate and efficient way. © 2015 Wiley Periodicals, Inc.

Force Field

Dihedral angle

Metadynamics

10.1002/jcc.24227

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Citations (15)

Value of serum GGT level in the timing of diagnosis of choledochal cyst perforation

Frontiers in Pediatrics (2022)

Shuhao Zhang Duote Cai Qingjiang Chen Yuebin Zhang Ken Chen

Background Choledochal cyst perforation is extremely rare, and early diagnosis or prediction is important for the immediate therapeutic intervention of perforations. This study aimed to define the predictor(s) of an impending or complete spontaneous perforation of choledochal cyst and establish the optimal operative timing. Methods All 429 consecutive choledochal cyst patients from January 2015 to December 2021, were included. A retrospective study was performed based on Kaplan-Meier analysis, and Cox univariate and multivariate analyses. Results A total of 429 patients were included, among which, 21 had choledochal cyst perforations (group A), and 408 did not (group B). Compared to group B, the serum alanine aminotransferase, aspartate aminotransferase, direct bilirubin, gamma-glutamyl transpeptidase, indirect bilirubin, total bilirubin, and alkaline phosphatase were significantly higher in group A ( p = 0.025, 0.006, < 0.0001, 0.0001, 0.001, < 0.0001, and 0.033). High serum gamma-glutamyl transpeptidase was negatively associated with perforation-free preoperative survival, and multivariate Cox regression revealed that serum gamma-glutamyl transpeptidase was an independent predictive factor for an impending or complete perforation ( p = 0.042). Conclusions A gamma-glutamyl transpeptidase level ≥ 346.5 U/L accompanied with significantly elevated liver enzymes and bilirubin levels was indicative of the possibility of an impending or complete choledochal cyst perforation, and a proactive surgical approach should be considered.

Choledochal Cysts

Perforation

Univariate analysis

Gamma-glutamyltransferase

10.3389/fped.2022.921853

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Citations (3)

A Rationally Designed Building Block of the Putative Magnetoreceptor MagR

Bioelectromagnetics (2022)

Peilin Yang Tiantian Cai Lei Zhang Daqi Yu Zhen Guo

The ability of animals to perceive guidance cues from Earth's magnetic field for orientation and navigation has been supported by a wealth of behavioral experiments, yet the nature of this sensory modality remains fascinatingly unresolved and wide open for discovery. MagR has been proposed as a putative magnetoreceptor based on its intrinsic magnetism and its complexation with a previously suggested key protein in magnetosensing, cryptochrome, to form a rod-like polymer structure. Here, we report a rationally designed single-chain tetramer of MagR (SctMagR), serving as the building block of the hierarchical assembly of MagR polymer. The magnetic trapping experiment and direct magnetic measurement of SctMagR demonstrated the possibility of magnetization of nonmagnetic cells via overexpressing a single protein, which has great potential in various applications. SctMagR, as reported in this study, serves as a prototype of designed magnetic biomaterials inspired by animal magnetoreception. The features of SctMagR provide insights into the unresolved origin of the intrinsic magnetic moment, which is of considerable interest in both biology and physics. © 2022 Bioelectromagnetics Society.

Magnetoreception

Magnetism

Bioelectromagnetics

10.1002/bem.22413

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Citations (9)

International Research Initiative on Genomics-guided Sugarcane Breeding

Molecular Plant (2025)

Xingtan Zhang Jungang Wang Noor-ul Áin Youxiong Que Jisen Zhang

10.1016/j.molp.2025.01.003

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Citations (0)

Polarizable atomic multipole-based force field for DOPC and POPE membrane lipids

Molecular Physics (2018)

Huiying Chu Xiangda Peng Yan Li Yuebin Zhang Hanyi Min

Huiying Chua*, Xiangda Pengab*, Yan Lia*, Yuebin Zhanga, Hanyi Minc* & Guohui Lia*a Laboratory of Molecular Modeling and Design, State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Science, Liaoning, Chinab University of Chinese Academy of Sciences, Chinese Academy of Sciences, Beijing, Chinac Chinese Academy of Medical Science & Peking Union Medical College Hospital, Ophthalmology, Beijing, China

10.1080/00268976.2018.1436201

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Citations (13)