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1

Is Nanoclustering essential for all oncogenic KRas pathways? Can it explain why wild-type KRas can inhibit its oncogenic variant?

Nussinov, Ruth, Tsai, Chung-Jung, Jang, Hyunbum

Journal:

Seminars in Cancer Biology

Year:

2018

Language:

english

File:

PDF, 795 KB

english, 2018

2

The Structural Basis of Oncogenic Mutations G12, G13 and Q61 in Small GTPase K-Ras4B

Lu, Shaoyong, Jang, Hyunbum, Nussinov, Ruth, Zhang, Jian

Journal:

Scientific Reports

Year:

2016

Language:

english

File:

PDF, 3.28 MB

english, 2016

3

Drugging Ras GTPase: a comprehensive mechanistic and signaling structural view

Lu, Shaoyong, Jang, Hyunbum, Gu, Shuo, Zhang, Jian, Nussinov, Ruth

Journal:

Chemical Society Reviews

Year:

2016

Language:

english

File:

PDF, 5.31 MB

english, 2016

4

Intrinsic protein disorder in oncogenic KRAS signaling

Nussinov, Ruth, Jang, Hyunbum, Tsai, Chung-Jung, Liao, Tsung-Jen, Li, Shuai, Fushman, David, Zhang, Jian

Journal:

Cellular and Molecular Life Sciences

Year:

2017

Language:

english

File:

PDF, 3.91 MB

english, 2017

5

Antimicrobial Protegrin-1 Forms Amyloid-Like Fibrils with Rapid Kinetics Suggesting a Functional Link

Jang, Hyunbum, Arce, Fernando Teran, Mustata, Mirela, Ramachandran, Srinivasan, Capone, Ricardo, Nussinov, Ruth, Lal, Ratnesh

Journal:

Biophysical Journal

Year:

2011

Language:

english

File:

PDF, 1012 KB

english, 2011

6

K-Ras4B/calmodulin/PI3Kα: A promising new adenocarcinoma-specific drug target?

Nussinov, Ruth, Muratcioglu, Serena, Tsai, Chung-Jung, Jang, Hyunbum, Gursoy, Attila, Keskin, Ozlem

Journal:

Expert Opinion on Therapeutic Targets

Year:

2016

Language:

english

File:

PDF, 1.80 MB

english, 2016

7

Allosteric KRas4B Can Modulate SOS1 Fast and Slow Ras Activation Cycles

Liao, Tsung-Jen, Jang, Hyunbum, Fushman, David, Nussinov, Ruth

Journal:

Biophysical Journal

Year:

2018

Language:

english

File:

PDF, 5.47 MB

english, 2018

8

Are Parallel Proliferation Pathways Redundant?

Nussinov, Ruth, Tsai, Chung-Jung, Jang, Hyunbum

Journal:

Trends in Biochemical Sciences

Year:

2020

File:

PDF, 1.90 MB

2020

9

K3 Fragment of Amyloidogenic β 2 -Microglobulin Forms Ion Channels: Implication for Dialysis Related Amyloidosis

Mustata, Mirela, Capone, Ricardo, Jang, Hyunbum, Arce, Fernando Teran, Ramachandran, Srinivasan, Lal, Ratnesh, Nussinov, Ruth

Journal:

Journal of the American Chemical Society

Year:

2009

Language:

english

File:

PDF, 3.90 MB

english, 2009

10

Annular Structures as Intermediates in Fibril Formation of Alzheimer Aβ 17−42

Zheng, Jie, Jang, Hyunbum, Ma, Buyong, Nussinov, Ruth

Journal:

Journal of Physical Chemistry B

Year:

2008

Language:

english

File:

PDF, 5.77 MB

english, 2008

11

Dynamic phase transitions in thin ferromagnetic films

Jang, Hyunbum, Grimson, Malcolm J., Hall, Carol K.

Journal:

Physical Review B

Year:

2003

Language:

english

File:

PDF, 692 KB

english, 2003

12

Independent and core pathways in oncogenic KRAS signaling

Nussinov, Ruth, Tsai, Chung-Jung, Jang, Hyunbum

Journal:

Expert Review of Proteomics

Year:

2016

Language:

english

File:

PDF, 613 KB

english, 2016

13

Oncogenic KRas mobility in the membrane and signaling response

Nussinov, Ruth, Tsai, Chung-Jung, Jang, Hyunbum

Journal:

Seminars in Cancer Biology

Year:

2018

Language:

english

File:

PDF, 519 KB

english, 2018

14

Arl2-Mediated Allosteric Release of Farnesylated KRas4B from Shuttling Factor PDEδ

Ozdemir, E. Sila, Jang, Hyunbum, Gursoy, Attila, Keskin, Ozlem, Nussinov, Ruth

Journal:

Journal of Physical Chemistry B

Year:

2018

Language:

english

File:

PDF, 2.35 MB

english, 2018

15

Structure Based Search for Multiple Binding Sites of SOS1 PR Domain Recognizes an Uncovered Motif Favoring GRB2-SOS1 Association

Liao, Tsung-Jen, Jang, Hyunbum, Nussinov, Ruth, Fushman, David

Journal:

Biophysical Journal

Year:

2019

Language:

english

File:

PDF, 48 KB

english, 2019

16

Protegrin-1 (PG-1), An Antimicrobial Peptide Forms Ion Channels: Atomic Force Microscopy, Channel Conductance, and Molecular Dynamics Simulation Study

Capone, Ricardo, Mustata, Mirela, Jang, Hyunbum, Ramachandran, Srinivasan, Nussinov, Ruth, Lal, Ratneshwar

Journal:

Biophysical Journal

Year:

2010

Language:

english

File:

PDF, 60 KB

english, 2010

17

Graphite-Templated Amyloid Nanostructures Formed by a Potential Pentapeptide Inhibitor for Alzheimer’s Disease: A Combined Study of Real-Time Atomic Force Microscopy and Molecular Dynamics Simulations

Li, Na, Jang, Hyunbum, Yuan, Ming, Li, Wanrong, Yun, Xiaolin, Lee, Joon, Du, Qiqige, Nussinov, Ruth, Hou, Jiahua, Lal, Ratnesh, Zhang, Feng

Journal:

Year:

2017

Language:

english

File:

PDF, 10.25 MB

english, 2017

18

Raf-1 Cysteine-Rich Domain Increases the Affinity of K-Ras/Raf at the Membrane, Promoting MAPK Signaling

Li, Shuai, Jang, Hyunbum, Zhang, Jian, Nussinov, Ruth

Journal:

Year:

2018

Language:

english

File:

PDF, 4.95 MB

english, 2018

19

The structural basis for Ras activation of PI3Kα lipid kinase

Zhang, Mingzhen, Jang, Hyunbum, Nussinov, Ruth

Journal:

Physical Chemistry Chemical Physics

Year:

2019

Language:

english

File:

PDF, 3.90 MB

english, 2019

20

Antimicrobial Protegrin-1 Forms Ion Channels: Molecular Dynamic Simulation, Atomic Force Microscopy, and Electrical Conductance Studies

Capone, Ricardo, Mustata, Mirela, Jang, Hyunbum, Arce, Fernando Teran, Nussinov, Ruth, Lal, Ratnesh

Journal:

Biophysical Journal

Year:

2010

Language:

english

File:

PDF, 964 KB

english, 2010

21

Probing Structural Features of Alzheimer's β-Amyloid Ion Channels in Membranes Using Aβ Mutants

Capone, Ricardo, Kotler, Samuel A., Jang, Hyunbum, Connelly, Laura S., Nussinov, Ruth, Lal, Ratnesh

Journal:

Biophysical Journal

Year:

2011

Language:

english

File:

PDF, 39 KB

english, 2011

22

Oligomerization and nanocluster organization render specificity

Nussinov, Ruth, Jang, Hyunbum, Tsai, Chung-Jung

Journal:

Biological Reviews

Year:

2015

Language:

english

File:

PDF, 883 KB

english, 2015

23

Autoinhibition in Ras effectors Raf, PI3Kα, and RASSF5: a comprehensive review underscoring the challenges in pharmacological intervention

Nussinov, Ruth, Zhang, Mingzhen, Tsai, Chung-Jung, Liao, Tsung-Jen, Fushman, David, Jang, Hyunbum

Journal:

Biophysical Reviews

Year:

2018

Language:

english

File:

PDF, 3.41 MB

english, 2018

24

The mechanism of PI3Kα activation at the atomic level

Zhang, Mingzhen, Jang, Hyunbum, Nussinov, Ruth

Journal:

Chemical Science

Year:

2019

Language:

english

File:

PDF, 1.16 MB

english, 2019

25

The Mystery of Rap1 Suppression of Oncogenic Ras

Nussinov, Ruth, Jang, Hyunbum, Zhang, Mingzhen, Tsai, Chung-Jung, Sablina, Anna A.

Journal:

Trends in Cancer

Year:

2020

File:

PDF, 4.06 MB

2020

26

Modeling the Alzheimer Aβ17-42 Fibril Architecture: Tight Intermolecular Sheet-Sheet Association and Intramolecular Hydrated Cavities

Zheng, Jie, Jang, Hyunbum, Ma, Buyong, Tsai, Chung-Jun, Nussinov, Ruth

Journal:

Biophysical Journal

Year:

2007

Language:

english

File:

PDF, 1.69 MB

english, 2007

27

Editorial Board

Capone, Ricardo, Kotler, Samuel A., Jang, Hyunbum, Connelly, Laura S., Nussinov, Ruth, Lal, Ratnesh

Journal:

Pediatric Clinics of North America

Year:

2001

Language:

english

File:

PDF, 76 KB

english, 2001

28

Effects of Point Substitutions on the Structure of Toxic Alzheimer’s β-Amyloid Channels: Atomic Force Microscopy and Molecular Dynamics Simulations

Connelly, Laura, Jang, Hyunbum, Teran Arce, Fernando, Ramachandran, Srinivasan, Kagan, Bruce L., Nussinov, Ruth, Lal, Ratnesh

Journal:

Year:

2012

Language:

english

File:

PDF, 1.63 MB

english, 2012

29

Dynamic multiprotein assemblies shape the spatial structure of cell signaling

Nussinov, Ruth, Jang, Hyunbum

Journal:

Progress in Biophysics and Molecular Biology

Year:

2014

Language:

english

File:

PDF, 766 KB

english, 2014

30

Surface-induced ordering in thin uniaxial liquid crystal films

Jang, Hyunbum, Grimson, Malcolm J.

Journal:

Physical Review E

Year:

2000

Language:

english

File:

PDF, 163 KB

english, 2000

31

PDEδ Binding to Ras Isoforms Provides a Route to Proper Membrane Localization

Muratcioglu, Serena, Jang, Hyunbum, Gursoy, Attila, Keskin, Ozlem, Nussinov, Ruth

Journal:

Journal of Physical Chemistry B

Year:

2017

Language:

english

File:

PDF, 2.41 MB

english, 2017

32

The Mechanism of PI3Kα Activation at the Atomic Level

Zhang, Mingzhen, Jang, Hyunbum, Nussinov, Ruth

Journal:

Biophysical Journal

Year:

2019

Language:

english

File:

PDF, 42 KB

english, 2019

33

Medin Oligomer Membrane Pore Formation: A Potential Mechanism of Vascular Dysfunction

Younger, Scott, Jang, Hyunbum, Davies, Hannah A., Niemiec, Martin J., Garcia, Joe G.N., Nussinov, Ruth, Migrino, Raymond Q., Madine, Jillian, Arce, Fernando T.

Journal:

Biophysical Journal

Year:

2020

File:

PDF, 3.01 MB

2020

34

Conformational study of the protegrin-1 (PG-1) dimer interaction with lipid bilayers and its effect

Hyunbum Jang, Buyong Ma, Ruth Nussinov

Journal:

BMC Structural Biology

Year:

2007

Language:

english

File:

PDF, 2.21 MB

english, 2007

35

β-Barrel Topology of Alzheimer's β-Amyloid Ion Channels

Hyunbum Jang, Fernando Teran Arce, Srinivasan Ramachandran, Ricardo Capone, Ratnesh Lal, Ruth Nussinov

Journal:

Journal of Molecular Biology

Year:

2010

Language:

english

File:

PDF, 3.89 MB

english, 2010

36

Probing ion channel activity of human islet amyloid polypeptide (amylin)

Jun Zhao, Yin Luo, Hyunbum Jang, Xiang Yu, Guanghong Wei, Ruth Nussinov, Jie Zheng

Journal:

Biochimica et Biophysica Acta (BBA) - Biomembranes

Year:

2012

Language:

english

File:

PDF, 1.96 MB

english, 2012

37

Comparison of the Conformations of KRAS Isoforms, K-Ras4A and K-Ras4B, Points to Similarities and Significant Differences

Chakrabarti, Mayukh, Jang, Hyunbum, Nussinov, Ruth

Journal:

Journal of Physical Chemistry B

Year:

2016

Language:

english

File:

PDF, 8.77 MB

english, 2016

38

RAS Signaling in the PI3K/AKT/MTOR Pathway

Nussinov, Ruth, Zhang, Mingzhen, Jang, Hyunbum

Journal:

Biophysical Journal

Year:

2020

File:

PDF, 48 KB

2020

39

SOS1 interacts with Grb2 through regions that induce closed nSH3 conformations

Liao, Tsung-Jen, Jang, Hyunbum, Fushman, David, Nussinov, Ruth

Journal:

The Journal of Chemical Physics

Year:

2020

File:

PDF, 11.65 MB

2020

40

Tools for channels: moving towards molecular calculations of gating and permeation in ion channel biophysics

Thomas B. Woolf, Daniel M. Zuckerman, Nandou Lu, Hyunbum Jang

Journal:

Journal of Molecular Graphics and Modelling

Year:

2004

Language:

english

File:

PDF, 566 KB

english, 2004

41

Models of Toxic β-Sheet Channels of Protegrin-1 Suggest a Common Subunit Organization Motif Shared with Toxic Alzheimer β-Amyloid Ion Channels

Jang, Hyunbum, Ma, Buyong, Lal, Ratnesh, Nussinov, Ruth

Journal:

Biophysical Journal

Year:

2008

Language:

english

File:

PDF, 1.23 MB

english, 2008

42

β 2 -Microglobulin Amyloid Fragment Organization and Morphology and Its Comparison to Aβ Suggests That Amyloid Aggregation Pathways Are Sequence Specific †

Zheng, Jie, Jang, Hyunbum, Nussinov, Ruth

Journal:

Year:

2008

Language:

english

File:

PDF, 2.26 MB

english, 2008

43

Exchange anisotropy and the dynamic phase transition in thin ferromagnetic Heisenberg films

Jang, Hyunbum, Grimson, Malcolm J., Hall, Carol K.

Journal:

Physical Review E

Year:

2003

Language:

english

File:

PDF, 323 KB

english, 2003

44

Calmodulin and IQGAP1 activation of PI3Kα and Akt in KRAS, HRAS and NRAS-driven cancers

Nussinov, Ruth, Zhang, Mingzhen, Tsai, Chung-Jung, Jang, Hyunbum

Journal:

Biochimica et Biophysica Acta (BBA) - Molecular Basis of Disease

Year:

2017

Language:

english

File:

PDF, 1.20 MB

english, 2017

45

Allosteric KRas4B Can Modulate SOS1 Fast and Slow Ras Activation Cycles

Liao, Tsung-Jen, Jang, Hyunbum, Fushman, David, Nussinov, Ruth

Journal:

Biophysical Journal

Year:

2018

File:

PDF, 5.47 MB

2018

46

The quaternary assembly of KRas4B with Raf-1 at the membrane

Jang, Hyunbum, Zhang, Mingzhen, Nussinov, Ruth

Journal:

Computational and Structural Biotechnology Journal

Year:

2020

File:

PDF, 5.41 MB

2020

47

Nucleotide-Specific Autoinhibition of Full-Length K-Ras4B Identified by Extensive Conformational Sampling

Dudas, Balint, Merzel, Franci, Jang, Hyunbum, Nussinov, Ruth, Perahia, David, Balog, Erika

Journal:

Frontiers in Molecular Biosciences

Year:

2020

File:

PDF, 3.08 MB

2020

48

Real-Time Afm Imaging of Surface-Induced Oligomerization of the Non-Amyloidogenic P3 Peptide: Implications for Membrane Insertion and Ion Channel Formation

Arce, Fernando M. Teran, Jang, Hyunbum, Nussinov, Ruth, Lal, Ratnesh

Journal:

Biophysical Journal

Year:

2010

Language:

english

File:

PDF, 44 KB

english, 2010

49

Modeling Ion-Permeable β-Amyloid (Aβ) Barrels in the Lipid Bilayer

Jang, Hyunbum, Arce, Fernando Teran, Capone, Ricardo, Ramachandran, Srinivasan, Lal, Ratnesh, Nussinov, Ruth

Journal:

Biophysical Journal

Year:

2010

Language:

english

File:

PDF, 40 KB

english, 2010

50

Mechanisms for the Insertion of Toxic, Fibril-like β-Amyloid Oligomers into the Membrane

Jang, Hyunbum, Connelly, Laura, Teran Arce, Fernando, Ramachandran, Srinivasan, Kagan, Bruce L., Lal, Ratnesh, Nussinov, Ruth

Journal:

Journal of Chemical Theory and Computation

Year:

2013

Language:

english

File:

PDF, 2.21 MB

english, 2013

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