Walinda Erik ＷａｌｉｎｄａＥｒｉｋ

… Alternative Names

WALINDA ERIK Walinda Erik

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Researcher Number	80782391
Other IDs
Affiliation (Current)	2025: 京都大学, 医学研究科, 助教
Affiliation (based on the past Project Information) *help	2018 – 2023: 京都大学, 医学研究科, 助教
Review Section/Research Field	Principal Investigator Basic Section 43040:Biophysics-related Except Principal Investigator Medium-sized Section 43:Biology at molecular to cellular levels, and related fields / Medium-sized Section 13:Condensed matter physics and related fields
Keywords	Principal Investigator Ubiquitin / M1-linked chains / ubiquitin binding / ubiquitin / NZF domain / Protein binding / binding domains / polyubiquitin / Competitive binding / Chemical physics … More / Binding proteins / NF-kB signaling / zinc finger / HOIL-1L / linear ubiquitin / NF-kappa B / Linear polyubiquitin / Molecular competition / MD simulations / ITC / NMR spectroscopy / linear ubiquitin chains / M1 ubiquitin chains / 生物物理 / 蛋白質 / NMR / ユビキチン / Protein dynamics / Molecular recognition / nanosecond dynamics / protein binding / protein dynamics / millisecond dynamics / molecular dynamics / solution NMR / K63-linked chains / K48-linked chains / UBA domain … More Except Principal Investigator 分子動力学計算 / 凝集 / 電気泳動 / タンパク質 / NMR / 電場 / 線維化 / タンパク質凝集 / 乱流 / off-center Couette cell / 速度イメージング / Rheo-NMR Less

Regulation of NF-kB signaling through competitive interactions against linear polyubiquitinPrincipal Investigator
- Principal Investigator
  
  Walinda Erik
- Project Period (FY)
  2022 – 2024
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Review Section
  
  Basic Section 43040:Biophysics-related
- Research Institution
  Kyoto University
Development of analytical platform for proteins in electric field and its application
- Principal Investigator
  
  菅瀬謙治
- Project Period (FY)
  2022 – 2025
- Research Category
  
  Fund for the Promotion of Joint International Research (Fostering Joint International Research (B))
- Review Section
  
  Medium-sized Section 43:Biology at molecular to cellular levels, and related fields
- Research Institution
  Kyoto University
Competitive linear ubiquitin binding in NFkB-signalingPrincipal Investigator
- Principal Investigator
  
  WALINDA Erik
- Project Period (FY)
  2020 – 2022
- Research Category
  
  Grant-in-Aid for Early-Career Scientists
- Review Section
  
  Basic Section 43040:Biophysics-related
- Research Institution
  Kyoto University
Dynamic Character of the Ubiquitin SystemPrincipal Investigator
- Principal Investigator
  
  WALINDA ERIK
- Project Period (FY)
  2018 – 2020
- Research Category
  
  Grant-in-Aid for Early-Career Scientists
- Review Section
  
  Basic Section 43040:Biophysics-related
- Research Institution
  Kyoto University
Velocity imaging of turbulence flow using Rheo-NMR
- Principal Investigator
  
  Sugase Kenji
- Project Period (FY)
  2018 – 2021
- Research Category
  
  Fund for the Promotion of Joint International Research (Fostering Joint International Research (B))
- Review Section
  
  Medium-sized Section 13:Condensed matter physics and related fields
- Research Institution
  Kyoto University

All 2024 2023 2022 2021 2020 2019 2018

All Journal Article Presentation

[Journal Article] An integrated approach of NMR experiments and MD simulations visualizes structural dynamics of a cyclic multi‐domain protein2023
- Author(s)
  Sorada Tomoki、Walinda Erik、Shirakawa Masahiro、Sugase Kenji、Morimoto Daichi
- Journal Title
  
  Protein Science
  
  Volume: 32 Issue: 10
- DOI
  10.1002/pro.4768
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22K06161, KAKENHI-PROJECT-22K06168, KAKENHI-PROJECT-23KJ1276
[Journal Article] 混雑環境がタンパク質の構造揺らぎと異常凝集体形成に影響を与える2023
- Author(s)
  森本大智、Erik Walinda、菅瀬謙治
- Journal Title
  
  月刊「細胞」
  
  Volume: 3月号 Pages: 1-1
- Data Source
  KAKENHI-PROJECT-22K06161
[Journal Article] Conformational Fluctuations and Induced Orientation of a Protein, Its Solvation Shell, and Bulk Water in Weak Non-Unfolding External Electric Fields2023
- Author(s)
  Shuto Yusuke、Walinda Erik、Morimoto Daichi、Sugase Kenji
- Journal Title
  
  The Journal of Physical Chemistry B
  
  Volume: 127 Issue: 34 Pages: 7417-7430
- DOI
  10.1021/acs.jpcb.3c01683
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22KK0098, KAKENHI-PROJECT-22K06161, KAKENHI-PROJECT-22K06168, KAKENHI-PLANNED-22H05088, KAKENHI-PROJECT-21H02442
[Journal Article] Solution structure of the HOIL-1L NZF domain reveals a conformational switch regulating linear ubiquitin affinity2023
- Author(s)
  Walinda Erik、Sugase Kenji、Ishii Naoki、Shirakawa Masahiro、Iwai Kazuhiro、Morimoto Daichi
- Journal Title
  
  Journal of Biological Chemistry
  
  Volume: 299 Issue: 9 Pages: 105165-105165
- DOI
  10.1016/j.jbc.2023.105165
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-22K06161, KAKENHI-PROJECT-22K06168, KAKENHI-PROJECT-22H04988
[Journal Article] Structural Insights into Methylated DNA Recognition by the Methyl-CpG Binding Domain of MBD6 from <i>Arabidopsis thaliana</i>2022
- Author(s)
  Mahana Yutaka、Ohki Izuru、Walinda Erik、Morimoto Daichi、Sugase Kenji、Shirakawa Masahiro
- Journal Title
  
  ACS Omega
  
  Volume: 7 Issue: 4 Pages: 3212-3221
- DOI
  10.1021/acsomega.1c04917
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20H00453, KAKENHI-PROJECT-20K15757, KAKENHI-PROJECT-22K06161, KAKENHI-PROJECT-20K15756
[Journal Article] Counter-flow phenomena studied by nuclear magnetic resonance (NMR) velocimetry and flow simulations2022
- Author(s)
  Kohn Benjamin、Walinda Erik、Sugase Kenji、Morimoto Daichi、Scheler Ulrich
- Journal Title
  
  Physics of Fluids
  
  Volume: 34 Issue: 7 Pages: 073608-073608
- DOI
  10.1063/5.0097543
- Peer Reviewed / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-22K06161, KAKENHI-PROJECT-20K15756, KAKENHI-PROJECT-22K06168, KAKENHI-PROJECT-20K15757
[Journal Article] Rheo‐NMR Spectroscopy for Cryogenic‐Probe‐Equipped NMR Instruments to Monitor Protein Aggregation2022
- Author(s)
  Morimoto Daichi、Walinda Erik、Yamamoto Akihiko、Scheler Ulrich、Sugase Kenji
- Journal Title
  
  Current Protocols
  
  Volume: 2 Issue: 12
- DOI
  10.1002/cpz1.617
- Peer Reviewed / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-22K06161, KAKENHI-PLANNED-22H05088, KAKENHI-PROJECT-21H02442, KAKENHI-PROJECT-20K15756, KAKENHI-PROJECT-22K06168, KAKENHI-PROJECT-20K15757
[Journal Article] Structural Dynamic Heterogeneity of Polyubiquitin Subunits Affects Phosphorylation Susceptibility2021
- Author(s)
  Morimoto Daichi、Walinda Erik、Takashima Shingo、Nishizawa Mayu、Iwai Kazuhiro、Shirakawa Masahiro、Sugase Kenji
- Journal Title
  
  Biochemistry
  
  Volume: 60 Issue: 8 Pages: 573-583
- DOI
  10.1021/acs.biochem.0c00619
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20K15757, KAKENHI-PLANNED-18H05499, KAKENHI-PROJECT-17H06174, KAKENHI-PROJECT-19J13259, KAKENHI-PROJECT-18K19297, KAKENHI-PROJECT-18K14665
[Journal Article] Molecular recognition and deubiquitination of cyclic K48-linked ubiquitin chains by OTUB12021
- Author(s)
  Sorada Tomoki、Morimoto Daichi、Walinda Erik、Sugase Kenji
- Journal Title
  
  Biochemical and Biophysical Research Communications
  
  Volume: 562 Pages: 94-99
- DOI
  10.1016/j.bbrc.2021.05.031
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-18KK0075
[Journal Article] Transient Diffusive Interactions with a Protein Crowder Affect Aggregation Processes of Superoxide Dismutase 1 β-Barrel2021
- Author(s)
  Iwakawa Naoto、Morimoto Daichi、Walinda Erik、Leeb Sarah、Shirakawa Masahiro、Danielsson Jens、Sugase Kenji
- Journal Title
  
  The Journal of Physical Chemistry B
  
  Volume: 125 Issue: 10 Pages: 2521-2532
- DOI
  10.1021/acs.jpcb.0c11162
- Peer Reviewed / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-20K15757, KAKENHI-PROJECT-18KK0075, KAKENHI-PROJECT-18J22192, KAKENHI-PROJECT-18K19297, KAKENHI-PROJECT-18K14665
[Journal Article] Expression, solubility monitoring, and purification of the co-folded LUBAC LTM domain by structure-guided tandem folding in autoinducing cultures2021
- Author(s)
  Walinda Erik、Morimoto Daichi、Sorada Tomoki、Iwai Kazuhiro、Sugase Kenji
- Journal Title
  
  Protein Expression and Purification
  
  Volume: 187 Pages: 105953-105953
- DOI
  10.1016/j.pep.2021.105953
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-18KK0075, KAKENHI-PLANNED-18H05499, KAKENHI-PROJECT-17H06174, KAKENHI-PROJECT-20K15757, KAKENHI-PROJECT-20K15756
[Journal Article] Multiple-State Monitoring of SOD1 Amyloid Formation at Single-Residue Resolution by Rheo-NMR Spectroscopy2021
- Author(s)
  Iwakawa Naoto、Morimoto Daichi、Walinda Erik、Shirakawa Masahiro、Sugase Kenji
- Journal Title
  
  Journal of the American Chemical Society
  
  Volume: 143 Issue: 28 Pages: 10604-10613
- DOI
  10.1021/jacs.1c02974
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-18KK0075, KAKENHI-PROJECT-20H00453, KAKENHI-PROJECT-20K15757, KAKENHI-PROJECT-20K15756
[Journal Article] Effects of Weak Nonspecific Interactions with ATP on Proteins2021
- Author(s)
  Nishizawa Mayu、Walinda Erik、Morimoto Daichi、Kohn Benjamin、Scheler Ulrich、Shirakawa Masahiro、Sugase Kenji
- Journal Title
  
  Journal of the American Chemical Society
  
  Volume: 143 Issue: 31 Pages: 11982-11993
- DOI
  10.1021/jacs.0c13118
- Peer Reviewed / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-18KK0075, KAKENHI-PROJECT-20H00453, KAKENHI-PROJECT-20K15757, KAKENHI-PROJECT-20K15756
[Journal Article] Rigorous analysis of the interaction between proteins and low water-solubility drugs by qNMR-aided NMR titration experiments2021
- Author(s)
  Hirakawa Takuya、Walinda Erik、Morimoto Daichi、Sugase Kenji
- Journal Title
  
  Physical Chemistry Chemical Physics
  
  Volume: 23 Issue: 38 Pages: 21484-21488
- DOI
  10.1039/d1cp03175a
- Peer Reviewed / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-20K21391, KAKENHI-PROJECT-20K15757, KAKENHI-PROJECT-20K15756
[Journal Article] Backbone resonance assignments of the A2 domain of mouse von Willebrand factor2021
- Author(s)
  Morimoto Daichi、Osugi Masanori、Mahana Yutaka、Walinda Erik、Shirakawa Masahiro、Sugase Kenji
- Journal Title
  
  Biomolecular NMR Assignments
  
  Volume: 15 Issue: 2 Pages: 427-431
- DOI
  10.1007/s12104-021-10041-8
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-18KK0075, KAKENHI-PROJECT-20H00453, KAKENHI-PROJECT-20K15757, KAKENHI-PROJECT-20K15756
[Journal Article] Structural dynamics of double-stranded DNA with epigenome modification2020
- Author(s)
  Furukawa Ayako、Walinda Erik、Arita Kyohei、Sugase Kenji
- Journal Title
  
  Nucleic Acids Research
  
  Volume: 49 Issue: 2 Pages: 1152-1162
- DOI
  10.1093/nar/gkaa1210
- NAID
  120006943328
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-ORGANIZER-19H05739, KAKENHI-PLANNED-19H05741, KAKENHI-PROJECT-18H02392, KAKENHI-PROJECT-18K14665
[Journal Article] Quantitative monitoring of ubiquitination/deubiquitination reaction cycles by 18O-incorporation2020
- Author(s)
  Tanaka Yuka、Morimoto Daichi、Walinda Erik、Sugase Kenji、Shirakawa Masahiro
- Journal Title
  
  Biochemical and Biophysical Research Communications
  
  Volume: 529 Issue: 2 Pages: 418-424
- DOI
  10.1016/j.bbrc.2020.06.008
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20K15757, KAKENHI-PROJECT-18K19297, KAKENHI-PROJECT-18K14665
[Journal Article] Pinpoint analysis of a protein in slow exchange using F1F2-selective ZZ-exchange spectroscopy: assignment and kinetic analysis.2020
- Author(s)
  Mayu Nishizawa, Erik Walinda, Daichi Morimoto, Kenji Sugase
- Journal Title
  
  Journal of Biomolecular NMR
  
  Volume: 0 Issue: 4-5 Pages: 0-0
- DOI
  10.1007/s10858-020-00309-x
- Peer Reviewed / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-18K14665, KAKENHI-PUBLICLY-18H04551, KAKENHI-PROJECT-19J13259
[Journal Article] Tracking the 3D Rotational Dynamics in Nanoscopic Biological Systems.2020
- Author(s)
  Ryuji Igarashi, Takuma Sugi, Shingo Sotoma, Takuya Genjo, Yuta Kumiya, Erik Walinda, Hiroshi Ueno, Kazuhiro Ikeda, Hitoshi Sumiya, Hidehito Tochio, Yohsuke Yoshinari, Yoshie Harada, Masahiro Shirakawa
- Journal Title
  
  Journal of the American Chemical Society
  
  Volume: 142 Issue: 16 Pages: 7542-7554
- DOI
  10.1021/jacs.0c01191
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-18H01838, KAKENHI-PROJECT-20H02587, KAKENHI-PROJECT-18K14665, KAKENHI-PUBLICLY-19H05380
[Journal Article] Visualizing protein motion in Couette flow by all-atom molecular dynamics2020
- Author(s)
  Walinda Erik、Morimoto Daichi、Shirakawa Masahiro、Scheler Ulrich、Sugase Kenji
- Journal Title
  
  Biochimica et Biophysica Acta (BBA) - General Subjects
  
  Volume: 1864 Issue: 2 Pages: 129383-129383
- DOI
  10.1016/j.bbagen.2019.06.006
- Peer Reviewed / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-18K19297, KAKENHI-PROJECT-18KK0075, KAKENHI-PUBLICLY-18H04551, KAKENHI-WRAPUP-19H05452, KAKENHI-PROJECT-17K19196, KAKENHI-PROJECT-16K18503, KAKENHI-PROJECT-18K14665
[Journal Article] NMR resonance assignments of the NZF domain of mouse HOIL-1L free and bound to linear di-ubiquitin2018
- Author(s)
  Ishii Naoki、Walinda Erik、Iwakawa Naoto、Morimoto Daichi、Iwai Kazuhiro、Sugase Kenji、Shirakawa Masahiro
- Journal Title
  
  Biomolecular NMR Assignments
  
  Volume: 13 Issue: 1 Pages: 149-153
- DOI
  10.1007/s12104-018-09868-5
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K18503, KAKENHI-PROJECT-18K14665
[Journal Article] Backbone and side-chain resonance assignments of the methyl-CpG-binding domain of MBD6 from Arabidopsis thaliana2018
- Author(s)
  Iwakawa Naoto、Mahana Yutaka、Ono Arina、Ohki Izuru、Walinda Erik、Morimoto Daichi、Sugase Kenji、Shirakawa Masahiro
- Journal Title
  
  Biomolecular NMR Assignments
  
  Volume: 13 Issue: 1 Pages: 59-62
- DOI
  10.1007/s12104-018-9851-2
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-18K06083, KAKENHI-PROJECT-16K18503, KAKENHI-PROJECT-18K14665, KAKENHI-PLANNED-26119004
[Journal Article] Resolving biomolecular motion and interactions by R2 and R1ρ relaxation dispersion NMR2018
- Author(s)
  Walinda Erik、Morimoto Daichi、Sugase Kenji
- Journal Title
  
  Methods
  
  Volume: 148 Pages: 28-38
- DOI
  10.1016/j.ymeth.2018.04.026
- Peer Reviewed / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K18503, KAKENHI-PROJECT-18K14665, KAKENHI-PUBLICLY-18H04551, KAKENHI-PROJECT-15H04342
[Presentation] 電場中におけるタンパク質の動的構造解析基盤の構築と凝集化機構解明への応用2024
- Author(s)
  首藤佑輔、Walinda Erik、森本大智、菅瀬謙治
- Organizer
  凝集系の理論化学研究会
- Invited
- Data Source
  KAKENHI-PROJECT-22KK0098
[Presentation] Solution-state polyubiquitin binding specificity exhibited by the extended NZF domain of LUBAC component HOIL-1L2022
- Author(s)
  Erik Walinda
- Organizer
  NMR討論会
- Data Source
  KAKENHI-PROJECT-20K15756
[Presentation] Solution-state polyubiquitin binding specificity exhibited by the extended NZF domain of LUBAC component HOIL-1L2022
- Author(s)
  Erik Walinda
- Organizer
  The International Symposium in Tokyo 2022 Ubiquitin New Frontier
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-20K15756
[Presentation] Molecular fluid dynamics description of Rheo-NMR2019
- Author(s)
  Walinda Erik
- Organizer
  EUROMAR 2019
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-18KK0075

1. Sugase Kenji (00300822)

# of Collaborated Projects: 2 results

# of Collaborated Products: 8 results
2. 森本大智 (40746616)

# of Collaborated Projects: 2 results

# of Collaborated Products: 12 results
3. 有田恭平

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
4. 白川昌宏

# of Collaborated Projects: 0 results

# of Collaborated Products: 2 results
5. 大木出

# of Collaborated Projects: 0 results

# of Collaborated Products: 2 results
6. 原田慶恵

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results

Walinda Erik Ｗａｌｉｎｄａ Ｅｒｉｋ

WALINDA ERIK Walinda Erik

Research Projects

Research Products

Co-Researchers

Regulation of NF-kB signaling through competitive interactions against linear polyubiquitinPrincipal Investigator

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

Development of analytical platform for proteins in electric field and its application

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

Competitive linear ubiquitin binding in NFkB-signalingPrincipal Investigator

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

Dynamic Character of the Ubiquitin SystemPrincipal Investigator

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

Velocity imaging of turbulence flow using Rheo-NMR

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

[Journal Article] An integrated approach of NMR experiments and MD simulations visualizes structural dynamics of a cyclic multi‐domain protein2023

Author(s)

Journal Title

DOI

Data Source

[Journal Article] 混雑環境がタンパク質の構造揺らぎと異常凝集体形成に影響を与える2023

Author(s)

Journal Title

Data Source

[Journal Article] Conformational Fluctuations and Induced Orientation of a Protein, Its Solvation Shell, and Bulk Water in Weak Non-Unfolding External Electric Fields2023

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Solution structure of the HOIL-1L NZF domain reveals a conformational switch regulating linear ubiquitin affinity2023

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Structural Insights into Methylated DNA Recognition by the Methyl-CpG Binding Domain of MBD6 from <i>Arabidopsis thaliana</i>2022

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Counter-flow phenomena studied by nuclear magnetic resonance (NMR) velocimetry and flow simulations2022

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Rheo‐NMR Spectroscopy for Cryogenic‐Probe‐Equipped NMR Instruments to Monitor Protein Aggregation2022

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Structural Dynamic Heterogeneity of Polyubiquitin Subunits Affects Phosphorylation Susceptibility2021

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Molecular recognition and deubiquitination of cyclic K48-linked ubiquitin chains by OTUB12021

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Transient Diffusive Interactions with a Protein Crowder Affect Aggregation Processes of Superoxide Dismutase 1 β-Barrel2021

Walinda Erik ＷａｌｉｎｄａＥｒｉｋ