Recent developments in deep learning applied to protein structure prediction [0.03%]
深度学习在蛋白质结构预测中的新进展
Shaun M Kandathil,Joe G Greener,David T Jones
Shaun M Kandathil
Although many structural bioinformatics tools have been using neural network models for a long time, deep neural network (DNN) models have attracted considerable interest in recent years. Methods employing DNNs have had a significant impact...
Critical assessment of methods of protein structure prediction (CASP)-Round XIII [0.03%]
第十三届关键性评估方法蛋白质结构预测(CASP)的批判性评价
Andriy Kryshtafovych,Torsten Schwede,Maya Topf et al.
Andriy Kryshtafovych et al.
CASP (critical assessment of structure prediction) assesses the state of the art in modeling protein structure from amino acid sequence. The most recent experiment (CASP13 held in 2018) saw dramatic progress in structure modeling without us...
Function2Form Bridge-Toward synthetic protein holistic performance prediction [0.03%]
从功能到形式的桥梁——迈向合成蛋白整体性能预测
Venkata V B Yallapragada,Sidney P Walker,Ciaran Devoy et al.
Venkata V B Yallapragada et al.
Protein engineering and synthetic biology stand to benefit immensely from recent advances in silico tools for structural and functional analyses of proteins. In the context of designing novel proteins, current in silico tools inform the use...
Lysosomal acid lipase does not have a propeptide and should not be considered being a proprotein [0.03%]
溶酶体酸性脂酶不含信号肽不应被视为前蛋白
Thea B Strøm,Terje Vinje,Katrine Bjune et al.
Thea B Strøm et al.
Lysosomal acid lipase (LAL) plays an important role in lipid metabolism by performing hydrolysis of triglycerides and cholesteryl esters in the lysosome. Based upon characteristics of LAL purified from human liver, it has been proposed that...
In silico design and molecular basis for the selectivity of Olinone toward the first over the second bromodomain of BRD4 [0.03%]
计算设计和奥林酮选择性地作用于BRD4的第一个溴结构域而非第二个的分子机制研究
Yoel Rodríguez,Guillermo Gerona-Navarro,Roman Osman et al.
Yoel Rodríguez et al.
Bromodomains (BrDs), a conserved structural module in chromatin-associated proteins, are well known for recognizing ε-N-acetyl lysine residues on histones. One of the most relevant BrDs is BRD4, a tandem BrD containing protein (BrD1 and Br...
Jesmita Dhar,Raghuvansh Kishore,Pinak Chakrabarti
Jesmita Dhar
Macromolecules are characterized by distinctive arrangement of hydrogen bonds. Different patterns of hydrogen bonds give rise to distinct and stable structural motifs. An analysis of 4114 non-redundant protein chains reveals the existence o...
Rojan Shrestha,Eduardo Fajardo,Nelson Gil et al.
Rojan Shrestha et al.
The accuracy of sequence-based tertiary contact predictions was assessed in a blind prediction experiment at the CASP13 meeting. After 4 years of significant improvements in prediction accuracy, another dramatic advance has taken place sinc...
Experimental comparison of energy landscape features of ubiquitin family proteins [0.03%]
泛素家族蛋白质能量景观特征的实验比较研究
Tathagata Nandi,Anju Yadav,Sri Rama Koti Ainavarapu
Tathagata Nandi
Small ubiquitin-related modifiers (SUMO1 and SUMO2) are ubiquitin family proteins, structurally similar to ubiquitin, differing in terms of their amino acid sequence and functions. Therefore, they provide a great platform for investigating ...
Comparative Study
Proteins. 2020 Mar;88(3):449-461. DOI:10.1002/prot.25822 2020
Cryo-electron microscopy targets in CASP13: Overview and evaluation of results [0.03%]
第13届Critical Assessment of Structure Prediction实验中关于冷冻电子显微镜靶点的概述与结果评估
Andriy Kryshtafovych,Sony Malhotra,Bohdan Monastyrskyy et al.
Andriy Kryshtafovych et al.
Structures of seven CASP13 targets were determined using cryo-electron microscopy (cryo-EM) technique with resolution between 3.0 and 4.0 Å. We provide an overview of the experimentally derived structures and describe results of the numeri...
Introducing "best single template" models as reference baseline for the Continuous Automated Model Evaluation (CAMEO) [0.03%]
介绍“最佳单模板模型”作为连续自动化模型评估(CAMEO)的参考基准线
Juergen Haas,Rafal Gumienny,Alessandro Barbato et al.
Juergen Haas et al.
Critical blind assessment of structure prediction techniques is crucial for the scientific community to establish the state of the art, identify bottlenecks, and guide future developments. In Critical Assessment of Techniques in Structure P...