ISSUE INFORMATION - COVER IMAGE

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Cover Image, Volume 89, Issue 12

  • Page: C1
  • First Published: 24 November 2021
Cover Image, Volume 89, Issue 12

Front Cover: The cover image has been created by Clemens Meyer and Adam Cain from DeepMind. It shows the ground truth experimental structure for CASP14 target T1044 in green, together with the prediction of the AlphaFold2 team in blue.Target T1044 (PDB 6VR4) is the RNA polymerase of the crAss-like phage phi14:2, a large single-chain protein with 2180 residues. Its structure was published by Drobysheva et al. (Nature, 2020). Target T1044 was split into 9 domains for the CASP14 experiment (T1031, T1033, T1035, T1037, T1039, T1040, T1041, T1042, and T1043); a prediction for the full protein chain, including domain packing, is shown here.

TABLE OF CONTENT

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Issue Information - Table of Content

  • Pages: 1603-1606
  • First Published: 24 November 2021

RESEARCH ARTICLES

RESEARCH ARTICLES

Prediction of protein assemblies, the next frontier: The CASP14-CAPRI experiment

Marc F. Lensink Guillaume Brysbaert Théo Mauri Nurul Nadzirin Sameer Velankar Raphael A. G. Chaleil Tereza Clarence Paul A. Bates Ren Kong Bin Liu Guangbo Yang Ming Liu Hang Shi Xufeng Lu Shan Chang Raj S. Roy Farhan Quadir Jian Liu Jianlin Cheng Anna Antoniak Cezary Czaplewski Artur Giełdoń Mateusz Kogut Agnieszka G. Lipska Adam Liwo Emilia A. Lubecka Martyna Maszota-Zieleniak Adam K. Sieradzan Rafał Ślusarz Patryk A. Wesołowski Karolina Zięba Carlos A. Del Carpio Muñoz Eiichiro Ichiishi Ameya Harmalkar Jeffrey J. Gray Alexandre M. J. J. Bonvin Francesco Ambrosetti Rodrigo Vargas Honorato Zuzana Jandova Brian Jiménez-García Panagiotis I. Koukos Siri Van Keulen Charlotte W. Van Noort Manon Réau Jorge Roel-Touris Sergei Kotelnikov Dzmitry Padhorny Kathryn A. Porter Andrey Alekseenko Mikhail Ignatov Israel Desta Ryota Ashizawa Zhuyezi Sun Usman Ghani Nasser Hashemi Sandor Vajda Dima Kozakov Mireia Rosell Luis A. Rodríguez-Lumbreras Juan Fernandez-Recio Agnieszka Karczynska Sergei Grudinin Yumeng Yan Hao Li Peicong Lin Sheng-You Huang Charles Christoffer Genki Terashi Jacob Verburgt Daipayan Sarkar Tunde Aderinwale Xiao Wang Daisuke Kihara Tsukasa Nakamura Yuya Hanazono Ragul Gowthaman Johnathan D. Guest Rui Yin Ghazaleh Taherzadeh Brian G. Pierce Didier Barradas-Bautista Zhen Cao Luigi Cavallo Romina Oliva Yuanfei Sun Shaowen Zhu Yang Shen Taeyong Park Hyeonuk Woo Jinsol Yang Sohee Kwon Jonghun Won Chaok Seok Yasuomi Kiyota Shinpei Kobayashi Yoshiki Harada Mayuko Takeda-Shitaka Petras J. Kundrotas Amar Singh Ilya A. Vakser Justas Dapkūnas Kliment Olechnovič Česlovas Venclovas Rui Duan Liming Qiu Xianjin Xu Shuang Zhang Xiaoqin Zou Shoshana J. Wodak
  • Pages: 1800-1823
  • First Published: 28 August 2021

ISSUE INFORMATION - FORTHCOMING

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Issue Information - Forthcoming

  • Page: 1997
  • First Published: 24 November 2021

ISSUE INFORMATION - COVER IMAGE

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Cover Image, Volume 89, Issue 12

  • Page: C4
  • First Published: 24 November 2021
Cover Image, Volume 89, Issue 12

Reverse Cover: The cover image is based on the review Critical assessment of methods of protein structure prediction (CASP) – Round XIV by Andriy Kryshtafovych, Torsten Schwede, Maya Topf, Krzysztof Fidelis and John Moult, DOI 10.1002/prot.26237. The highlight of the CASP14 experiment was an outstanding performance of AlphaFold2 structure modeling method. The cover image shows the backbone agreement with experiment of the best models in CASP1 (1994), CASP5 (2002) and the latest three CASP experiments. The data are shown as linear trend lines; for the most recent round, individual target points are shown as circles. Performance in CASP14 (top black line) is very impressive, with accuracy approaching experimental accuracy for many targets (GDT_TS of 90 or more). This outstanding performance is dominated by AlphaFold2 models, although other groups also advanced substantially from CASP13 (dashed black line). The agreement metric, GDT_TS, is a multi-scale indicator of the closeness of the Cα atoms in a model to those in the corresponding experimental structure. Target difficulty is based on sequence and structure similarity to other proteins with known experimental structures.