Reading List

Direct observation of stepping rotation of V-ATPase reveals rigid component in coupling between V _o and V ₁ motors

1. Akihiro Otomo
2. Tatsuya Iida
3. Yasuko Okuni
4. Hiroshi Ueno
5. Takeshi Murata
6. Ryota Iino

CaV1.2 channelopathic mutations evoke diverse pathophysiological mechanisms

1. Moradeke A. Bamgboye
2. Kevin G. Herold
3. Daiana C.O. Vieira
4. Maria K. Traficante
5. Philippa J. Rogers
6. Manu Ben-Johny
7. Ivy E. Dick

Structural bases for blockade and activation of BK channels by Ba2+ ions

1. Shubhra Srivastava
2. Pablo Miranda
3. Teresa Giraldez
4. Jianghai Zhu
5. Raul E. Cachau
6. Miguel Holmgren

Definition of a saxitoxin (STX) binding code enables discovery and characterization of the anuran saxiphilin family

1. Zhou Chen
2. Sandra Zakrzewska
3. Holly S. Hajare
4. Aurora Alvarez-Buylla
5. Fayal Abderemane-Ali
6. Maximiliana Bogan
7. Dave Ramirez
8. Lauren A. O’Connell
9. J. Du Bois
10. Daniel L. Minor

Molecular mechanism of phospholipid transport at the bacterial outer membrane interface

1. Jiang Yeow
2. Min Luo
3. Shu-Sin Chng

Structural mechanism of leaflet-specific phospholipid modulation of a pentameric ligand-gated ion channel

1. John T. Petroff
2. Noah M. Deitzen
3. Ezry Santiago-McRae
4. Brett Deng
5. Maya S. Washington
6. Lawrence J. Chen
7. K. Trent Moreland
8. Zengqin Deng
9. Michael Rau
10. James A. J. Fitzpatrick
11. Peng Yuan
12. Thomas T. Joseph
13. Jérôme Hénin
14. Grace Brannigan
15. Wayland W. L. Cheng

Role of TM3 in claudin-15 strand flexibility: A molecular dynamics study

1. Shadi Fuladi
2. Sarah McGuinness
3. Fatemeh Khalili-Araghi

Elevator-type Mechanism of the Cyanobacterial Bicarbonate Transporter

1. Matthew Chan
2. Yazeed Alfawaz
3. Arnav Paul
4. Diwakar Shukla

Computational and functional characterization of the PI(4,5)P ₂ binding site of the TRPM3 ion channel

1. Siyuan Zhao
2. Vincenzo Carnevale
3. Eleonora Gianti
4. Tibor Rohacs

Activation mechanism of the human Smoothened receptor

1. Prateek D. Bansal
2. Soumajit Dutta
3. Diwakar Shukla

• Curated by Biophysics Colab

  Evaluation statement (22 August 2023)

  Bansal et al. present an atomistic view of the transition cascade of the class F GPCR Smoothened (Smo). The extensive long-range molecular dynamics simulations together with stochastic modelling provide theoretical insight into Smo activation and how this is modulated by different ligands. The work identifies testable hypotheses for functional studies of Smo and other class F GPCRs. Future simulations of regions beyond the seven-transmembrane bundle, particularly the cysteine-rich domain, will afford a more complete understanding of receptor activation.

  Biophysics Colab considers this to be a convincing computational study and recommends it to scientists interested in the conformational dynamics of class F GPCRs.

  (This evaluation by Biophysics Colab refers to version 2 of this preprint, which has been revised in response to peer review of version 1.)

Reviewed by Biophysics Colab

Reshaping the dynamics of follicle-stimulant hormone receptor models in polyunsaturated lipid bilayers. Calculation of conformational free energy landscapes of α-helical domains from all-atom MD simulations

1. Eduardo Jardón-Valadez
2. Alfredo Ulloa-Aguirre
3. Tobías Portillo-Bobadilla
4. Geiser Villavicencio-Pulido

Illumination of a progressive allosteric mechanism mediating the glycine receptor activation

1. Sophie Shi
2. Solène N. Lefebvre
3. Laurie Peverini
4. Adrien H. Cerdan
5. Paula Milán Rodríguez
6. Marc Gielen
7. Jean-Pierre Changeux
8. Marco Cecchini
9. Pierre-Jean Corringer

Insights into autoregulation of a membrane protein complex by its cytoplasmic domains

1. Vanessa Leone
2. Richard T. Bradshaw
3. Caroline Koshy
4. Paul Suhwan Lee
5. Cristina Fenollar-Ferrer
6. Veronika Heinz
7. Christine Ziegler
8. Lucy R. Forrest

Osmotic stress response in BetP: How lipids and K ⁺ team up to overcome downregulation

1. Veronika Heinz
2. Günnur Güler
3. Vanessa Leone
4. M. Gregor Madej
5. Stanislav Maksimov
6. Rebecca M. Gärtner
7. Olga Rudi
8. Farzad Hamdi
9. Panagiotis L. Kastritis
10. Werner Mäntele
11. Reinhard Krämer
12. Lucy R. Forrest
13. Camilo Perez
14. Christine Ziegler

Lipid flipping in the omega-3 fatty-acid transporter

1. Chi Nguyen
2. Hsiang-Ting Lei
3. Louis Tung Faat Lai
4. Marc J. Gallenito
5. Xuelang Mu
6. Doreen Matthies
7. Tamir Gonen

Molecular simulations reveal a mechanism for enhanced allosteric coupling between voltage-sensor and pore domains in KCNQ1 explaining its activation by ML277

1. Georg Kuenze
2. Carlos G. Vanoye
3. Mason C. Wilkinson
4. Reshma R. Desai
5. Sneha Adusumilli
6. Charles R. Sanders
7. Alfred L. George
8. Jens Meiler

Lipid-mediated prestin organization in outer hair cell membranes and its implications in sound amplification

1. Sepehr Dehghani-Ghahnaviyeh
2. Zhiyu Zhao
3. Emad Tajkhorshid

Conformational motions and ligand-binding underlying gating and regulation in IP3R channel

1. Guizhen Fan
2. Mariah R. Baker
3. Lara E. Terry
4. Vikas Arige
5. Muyuan Chen
6. Alexander B. Seryshev
7. Matthew L. Baker
8. Steven J. Ludtke
9. David I. Yule
10. Irina I. Serysheva

The allosteric mechanism leading to an open-groove lipid conductive state of the TMEM16F scramblase

1. George Khelashvili
2. Ekaterina Kots
3. Xiaolu Cheng
4. Michael V. Levine
5. Harel Weinstein

A common mechanism of temperature-sensing in thermoTRP channels

1. Lizhen Xu
2. Xiao Liang
3. Wenxuan Zhen
4. Zhangzhi Xue
5. Fangfei Zhang
6. Xiao Yi
7. Xiaoying Chen
8. Lidan Hu
9. Bei Li
10. Bing Zhang
11. Yuhang Wang
12. Zhenfeng Deng
13. Wei Yang
14. Han Wen
15. Tiannan Guo
16. Yi Zhu
17. Fan Yang