施蕴渝｜中国科学技术大学｜学者主页

2026

Pioneers: Growing together with Molecular dynamics simulation and NMR for studying biomacromolecules in China.

Yunyu Shi

Journal of Molecular Biology

2026

Identification of a somatic H3K23me3 methyltransferase SET-19 in C. elegans

Mingjing Xu, Zixue Fan, Chaoyue Yan, Xiangyang Chen, Xin-Ya Huang, Cheng-Ming Zhu, Minjie Hong, Jie-Wei Cheng, Xinhao Hou, Shuju Li, Mengfeng Li, Yunyu Shi, Meng Huang, Shou-Hong Guang, Xue-Zhu Feng

bioRxiv

DOI

2026

Molecular mechanism underlying the specific RNA recognition of mitochondrial helicase DDX28 and its critical role in mitoribosomal biogenesis

Jing Cui, Meili Li, Lei Wang, Fudong Li, K.Q. Ruan, Mengqi Lv, Yunyu Shi

Structure

DOI

2025

Wanwan Zhou, Xiaodan Liu, Mengqi Lv, Yunyu Shi, Liang Zhang

Nucleic Acids Research

DOI

2022

线粒体与神经退行性疾病

施蕴渝，张亮

《生物学杂志》

2022

Driving force of biomolecular liquid–liquid phase separation probed by nuclear magnetic resonance spectroscopy

Hanyu Zhang, Fan Weiwei, Gilbert Nshogoza, Yaqian Liu, Jia Gao, Jihui Wu, Yunyu Shi, Xiaoming Tu, Jiahai Zhang, Ke Ruan

Biophysics Reports

DOI

2022

FEBS Journal

DOI

2018

丁勇，许超，吴季辉，施蕴渝，臧建业，蔡刚

《中国科学:生命科学》

2017

Chongyuan Wang, Yuwei Zhu, Hongyu Bao, Yiyang Jiang, Chao Xu, Jihui Wu, Yunyu Shi

Nucleic Acids Research

DOI

2015

Investigation of Protein-ligand Interactions by Molecular Dynamics and Saturation Transfer Difference NMR Spectroscopy

Yunyu Shi

2015

王大成，秦文明，李娜，姚德强，叶盛，张荣光，朱平，施蕴渝，施一公，柳振峰，张凯，朱平，杨娜，许瑞明，秦燕，王艳丽，江涛，李雪梅，王祥喜，高福，施一，刘迎芳，邵峰，吴蓓丽

《生物化学与生物物理进展》

2014

Faculty Opinions recommendation of Cryo-EM study of the chromatin fiber reveals a double helix twisted by tetranucleosomal units.

Yunyu Shi

DOI

2014

王丽君，王维维，龚庆国，吴季辉，施蕴渝

《生物化学与生物物理进展》

2013

Hfq-bridged ternary complex is important for translation activation of rpoS by DsrA

Weiwei Wang, Lijun Wang, Jihui Wu, Qingguo Gong, Yunyu Shi

Nucleic Acids Research

DOI

2013

Structural analysis of Stc1 provides insights into the coupling of RNAi and chromatin modification

Chao He, Sreerekha S. Pillai, Francesca Taglini, Fudong Li, Ke Ruan, Jiahai Zhang, Jihui Wu, Yunyu Shi, Elizabeth H. Bayne

Proceedings of the National Academy of Sciences

DOI

2013

Faculty Opinions recommendation of Protein activity regulation by conformational entropy.

Yunyu Shi

DOI

2013

黄小娟，Monique Beullens，张家海，周毅，吴季辉，Mathieu Bollen，施蕴渝

《生物物理学报》

2009

Solution structure and function of proteins relevant to pre-mRNA splicing

Yunyu Shi, Jihui Wu, Xiaojuan Huang, Xingsheng Wang Hefei National Laboratory for Physical Sciences at Microscale and School of Life Sciences, University of Science and Technology of China, Hefei, Anhui, 230026, P.R.China

《生物物理学报》

2009

施蕴渝，吴季辉

《中国科学技术大学学报》

2008

Yunyu Shi, Jihui Wu

2008

Conformational change upon ligand binding and dynamics of the PDZ domain from leukemia‐associated Rho guanine nucleotide exchange factor

Jiangxin Liu, Jiahai Zhang, Yinshan Yang, Hongda Huang, Weiqun Shen, Qi Hu, Xinsheng Wang, Jihui Wu, Yunyu Shi

Protein Science

DOI

2008

Solution structure of human DESR1, a CSL zinc‐binding protein

Fangming Wu, Jiahai Zhang, Jianping Sun, Hongda Huang, Peng Ji, Wangsheng Chu, Meijuan Yu, Feifei Yang, Ziyu Wu, Jihui Wu, Yunyu Shi

Proteins Structure Function and Bioinformatics

DOI

2007

核磁共振波谱应用于结构生物学的研究进展

施蕴渝，吴季辉

《生物物理学报》

2007

蔡征，许琛琦，吴季辉，徐应祺，戚正武，施蕴渝

《中国科学技术大学学报》

2006

陈泉，施蕴渝

《生命科学》

2004

压强温度耦合作用下小蛋白去折叠过程的分子动力学模拟

王吉华，张志勇，刘海燕，施蕴渝

《生物物理学报》

2004

Nek2A specifies the centrosomal localization of Erk2

Yang Lou, Wei Xie, Dongfang Zhang, Jian-hui Yao, Jian-hui Yao, Zhao-feng Luo, Yuzhen Wang, Yunyu Shi, Xuebiao Yao

Biochemical and Biophysical Research Communications

DOI

2004

Solution Structure of BmBKTx1, a New BK Ca 1 Channel Blocker from the Chinese Scorpion Buthus martensi Karsch ,

Zheng Cai, Chenqi Xu, Yingqi Xu, Wuyuan Lu, Cheng‐Wu Chi, Yunyu Shi, Jihui Wu

Biochemistry

DOI

2004

Letter to the Editor: 1H, 13C and 15N Resonance Assignments and the Secondary Structures of Human Coactosin Like Protein (hCLP) D123N

Haiming Dai, Jihui Wu, Yingqi Xu, Tang Yajun, Husheng Ding, Yunyu Shi

Journal of Biomolecular NMR

DOI

2003

姜勇，涂晓明，施蕴渝

《中国细胞生物学学报》

2000

Solution Structure of BmP02, a New Potassium Channel Blocker from the Venom of the Chinese ScorpionButhus martensiKarsch,

Yingqi Xu, Jihui Wu, Jiming Pei, Yunyu Shi, Yonghua Ji, Qingchun Tong

Biochemistry

DOI

2000

Expression and purification of a recombinant DNA-binding domain of ADR6 protein from Escherichia coli and its secondary structure characterization

Xiaoming Tu, Yazhong Xiao, Wanyong Zeng, Yunyu Shi

Biochimica et Biophysica Acta (BBA) - Protein Structure and Molecular Enzymology

DOI

2000

Resolution of the NMR Spectrum Using Wavelet Transform

Xueguang Shao, Hua Gu, Jihui Wu, Yunyu Shi

Incorporating density functional potential in classical molecular dynamics simulation

Hao Hu, Haiyan Liu, Yunyu Shi

Chinese Science Bulletin

DOI

1998

核磁共振波谱方法在顺磁金属蛋白-紫色震颤菌血红蛋白中的应用

夏佑林，吴季辉，光寿红，刘琴，张海阳，粱山，施蕴渝

《生物物理学报》

1998

后基因组时代的结构生物学及蛋白质和药物分子设计

施蕴渝

《世界科技研究与发展》

1998

边界元法分子表面三角形面元划分的改进和程序的检验

熊宇光，王存新，施蕴渝

《生物物理学报》

1998

Haiyan Liu, Yunyu Shi

Journal of Computational Chemistry

DOI

1993

Combination of Molecular Dynamic Simulation Program GROMOS With Semi-empirical Quantum Chemistry Method AM1

刘海燕，施蕴渝

Science Bulletin

1993

枯草杆菌蛋白酶E的分子动力学模拟和随机动力学模拟

施蕴渝，翟晓泉，王存新，黄复华

《生物物理学报》

1993

Relative binding free energy calculations of DNA to daunomycin and its 13-dihydro analogue

Yunyu Shi, Zhao Huimin, Wang Cunxin

International Journal of Biological Macromolecules

DOI

1992

研究生培养工作中的若干体会

施蕴渝

《研究生教育研究》，No. 2

下载原文

1992

Improvements on the protein–dipole Langevin–dipole model

Yingwu Xu, C. X. Wang, Yunyu Shi

施蕴渝，贠汝槐，王存新

《生物化学与生物物理进展》

精选作品

期刊论文

Pioneers: Growing together with Molecular dynamics simulation and NMR for studying biomacromolecules in China.

Identification of a somatic H3K23me3 methyltransferase SET-19 in C. elegans

Molecular mechanism underlying the specific RNA recognition of mitochondrial helicase DDX28 and its critical role in mitoribosomal biogenesis

生物大分子凝聚体研究相关术语

Comprehensive profiling of the catalytic conformations of human Guanylate kinase

NSUN6 inhibitor discovery guided by its mRNA substrate bound crystal structure

Human tripartite motif-containing protein 71 NCL-1/HT2A/LIN-41 domain crystal structure and its potential natural inhibitors

TRIM66-HP1γ remodels the chromatin through phase separation

Structural basis for C. elegans pairing center DNA binding specificity by the ZIM/HIM-8 family proteins

Germ granule compartments coordinate specialized small RNA production

Phase separation of hnRNPA1 and TERRA regulates telomeric stability

Structural basis for TNIP1 binding to FIP200 during mitophagy

Structural insights into the specific recognition of mitochondrial ribosome-binding factor hsRBFA and 12 S rRNA by methyltransferase METTL15

ZBTB48 is a priming factor regulating B-cell-specific CIITA expression

Repurposing Tolfenamic Acid to Anchor the Uncharacterized Pocket of the PUB Domain for Proteolysis of the Atypical E3 Ligase HOIP

PRMT1 and TDRD3 promote stress granule assembly by rebuilding the protein-RNA interaction network

Structural insights into the recognition of the A/T‐rich motif in target gene promoters by the LMX 1a homeobox domain

Molecular mechanism of specific HLA-A mRNA recognition by the RNA-binding-protein hMEX3B to promote tumor immune escape

A bivalent inhibitor against TDRD3 to suppress phase separation of methylated G3BP1

ZNF524 directly interacts with telomeric DNA and supports telomere integrity

Author Correction: Phase separation of EB1 guides microtubule plus-end dynamics

Predicting assembly mode of membraneless organelles by a FRET-based crowding sensor

ZBTB7A regulates primed‐to‐naïve transition of pluripotent stem cells via recognition of the PNT‐associated sequence by zinc fingers 1–2 and recognition of γ‐globin −200 gene element by zinc fingers 1–4

The recognition mode between hsRBFA and mitoribosome 12S rRNA during mitoribosomal biogenesis

线粒体与神经退行性疾病

Driving force of biomolecular liquid–liquid phase separation probed by nuclear magnetic resonance spectroscopy

Phase separation of EB1 guides microtubule plus-end dynamics

Structural basis for Gemin5 decamer-mediated mRNA binding

Structural insights reveal the specific recognition of meiRNA by the Mei2 protein

Two Binding Sites of SARS-CoV-2 Macrodomain 3 Probed by Oxaprozin and Meclomen

Faculty Opinions recommendation of Structural basis for strychnine activation of human bitter taste receptor TAS2R46.

Protocols for protein-DNA binding analysis of a zinc finger transcription factor bound to its cognate promoter

Faculty Opinions recommendation of Structures of full-length glycoprotein hormone receptor signalling complexes.

Faculty Opinions recommendation of Ligand recognition and allosteric regulation of DRD1-Gs signaling complexes.

Faculty Opinions recommendation of Structures of human mGlu2 and mGlu7 homo- and heterodimers.

Faculty Opinions recommendation of Structures of Gi-bound metabotropic glutamate receptors mGlu2 and mGlu4.

Faculty Opinions recommendation of Structural insights into preinitiation complex assembly on core promoters.

Structural basis of the interaction between SETD2 methyltransferase and hnRNP L paralogs for governing co-transcriptional splicing

Structural basis for human ZBTB7A action at the fetal globin promoter

Insight into the interaction between the RNA helicase CGH-1 and EDC-3 and its implications

Structural recognition of the mRNA 3′ UTR by PUF-8 restricts the lifespan of C. elegans

Structural and biochemical insights into the recognition of RNA helicase CGH-1 by CAR-1 in C. elegans

结构研究揭示ceNAP1对ceH2A-H2B的分子伴侣活性

Faculty Opinions recommendation of Structural basis of CXC chemokine receptor 2 activation and signalling.

Phase separation drives decision making in cell division

ERH facilitates microRNA maturation through the interaction with the N-terminus of DGCR8

Conformational Selection in Ligand Recognition by the First Tudor Domain of PHF20L1

Repurposing Low-Molecular-Weight Drugs against the Main Protease of Severe Acute Respiratory Syndrome Coronavirus 2

Faculty Opinions recommendation of Glia-to-Neuron Conversion by CRISPR-CasRx Alleviates Symptoms of Neurological Disease in Mice.

Faculty Opinions recommendation of Structural basis of ligand recognition and self-activation of orphan GPR52.

Crystal structure of Arabidopsis terminal uridylyl transferase URT1

Faculty Opinions recommendation of Moderate UV exposure enhances learning and memory by promoting a novel glutamate biosynthetic pathway in the brain.

Structural Insights into ceNAP1 Chaperoning Activity toward ceH2A-H2B

TRIM66 reads unmodified H3R2K4 and H3K56ac to respond to DNA damage in embryonic stem cells

Structural insights into the recognition of γ-globin gene promoter by BCL11A

NMR Fragment-Based Screening against Tandem RNA Recognition Motifs of TDP-43

A conserved dimer interface connects ERH and YTH family proteins to promote gene silencing

Conformation and mechanical property of rpoS mRNA inhibitory stem studied by optical tweezers and X-ray scattering

Structural insights into dimethylation of 12S rRNA by TFB1M: indispensable role in translation of mitochondrial genes and mitochondrial function

Metabolic and physiological perturbations of Escherichia coli W3100 by bacterial small RNA RyhB

Structural insight into the unique ds DNA binding topology of the human ORC 2 wing helix domain

二聚体RNA解旋酶CsdA的结构生物学研究及其C端区域的重要功能

Structural and functional characterization of hMEX‐3C Ring finger domain as an E3 ubiquitin ligase

Dynamic Nature of CTCF Tandem 11 Zinc Fingers in Multivalent Recognition of DNA As Revealed by NMR Spectroscopy

Structural insights reveal the specific recognition of roX RNA by the dsRNA-binding domains of the RNA helicase MLE and its indispensable role in dosage compensation inDrosophila

ZBTB10 binds the telomeric variant repeat TTGGGG and interacts with TRF2

Unveiling the structural features that determine the dual methyltransferase activities of Streptococcus pneumoniae RlmCD

Structural insights into a unique preference for 3′ terminal guanine of mirtron inDrosophilaTUTase tailor

Structural insights into the recognition of phosphorylated Hop1 by Mek1

Structural and functional characterization of the RBBP4–ZNF827 interaction and its role in NuRD recruitment to telomeres

Structural and biochemical insights into human zinc finger protein AEBP2 reveals interactions with RBBP4

表观遗传学研究进展

Faculty Opinions recommendation of Structure of the Nav1.4-β1 Complex from Electric Eel.

Structural and dynamic properties of the C-terminal region of the Escherichia coli RNA chaperone Hfq: integrative experimental and computational studies

Recent progress in epigenetics

The 11th C2H2 zinc finger and an adjacent C-terminal arm are responsible for TZAP recognition of telomeric DNA

Polo-like kinase 1 coordinates biosynthesis during cell cycle progression by directly activating pentose phosphate pathway

Insights into the Structure of Dimeric RNA Helicase CsdA and Indispensable Role of Its C-Terminal Regions