Publications

 

2017

Publications 45

 

 

#45
 

The DRY motif and the four corners of the cubic ternary complex model 

Rovati GE, Capra V, Shaw VS, Malik RU, Sivaramakrishnan S, Neubig R. Cellular Signaling. 2017 Mar 24;35:16-23. doi: 10.1016/j.cellsig.2017.03.020. 
 
Full Text: Link  PDF
 
 
Publications 44

 

 

#44
 

Priming GPCR signaling through the synergistic effect of two G proteins 

Gupte TM, Malik RU, Sommese RF, Ritt M, Sivaramakrishnan S. PNAS. 2017, Mar 21 [Epub date] doi:10.1073/pnas.1617232114
 
Full Text: Link  PDF
Publications 43

#43
 

The GCaMP-R Family of Genetically Encoded Ratiometric Calcium Indicators 

Cho JH, Swanson CJ, Chen J, Li A, Lippert LG, Boye SE, Rose K, Sivaramakrishnan S, Chuong CM, Chow RH. ACS Chem. Biol. 2017 Feb 14 [Epub date] doi: 10.1021/acschembio.6b00883
 
Full Text: Link  PDF
Publications 42

 

#42
 

The role of regulatory domains in maintaining auto-inhibition in the multi-domain kinase PKCα 

Sommese RF, Ritt M, Swanson CJ, Sivaramakrishnan S. J. Biol. Chem. 2017, Jan 3: doi:10.1074/jbc.M116.768457
 
Full Text: Link  PDF

2016

Publications 41

 

#41
 

Calcium Stimulates Self-Assembly of Protein Kinase C α In Vitro

C. Swanson, R. Sommese, K. Petersen, M. Ritt, J. Karslake, D. Thomas, and S. Sivaramakrishnan. PLoS ONE, 2016, Oct 5 11(10): e0162331. doi: 10.1371/journal.pone.0162331
 
Full TextLink   PDF
Publications 40

 

 

#40
 

G Protein-selective GPCR Conformations Measured Using FRET Sensors in a Live Cell Suspension Fluorometer Assay

A. Semack, R. U. Malik, and S. Sivaramakrishnan. J. Vis. Exp., 2016, Sep 10 (115), e54696, doi:10.3791/54696 (2016).
 
Full TextLink   PDF
Publications 38

 

 

#39
 

Patterning protein complexes on DNA nanostructures using a GFP nanobody

R. F. Sommese, R. F. Hariadi, K. Kim, M. Liu, M.J. Tyska, and S. Sivaramakrishnan. Protein Science. 2016 Nov; 25(11):2089-2094. doi: 10.1002/pro.3020 
 
Full TextLink   PDF
Publications 37

 

#38
 

Engineering Circular Gliding of Actin Filaments Along Myosin-Patterened DNA Nanotube Rings To Study Long-Term Actin-Myosin Behaviors

R. Hariadi, A. Appukutty, and S. Sivaramakrishnan. ACS Nano, 2016, 10(9), 8281-8288 doi:10.1021/acsnano.6b01294
 
Full TextLink   PDF
Publications 39

#37
 

Substrate Affinity Differentially Influences Protein Kinase C Regulation and Inhibitor Potency

R. Sommese and S. Sivaramakrishnan. J. Biol. Chem. 2016 Oct; 291(42):21963-21970
 
Full TextLink   PDF
Publications_36

 

 

#36
 

Structural elements in the Gαs and Gαq C-termini that mediate selective GPCR signaling.

A. Semack*, M. Sandhu*, R. U. Malik, N. Vaidehi and S. Sivaramakrishnan. J. Biol. Chem. 2016, Aug; 291(34): 17929-17940 doi: 10.1074/jbc.M116.735720
 
Full TextLink   PDF
publications_35

 

#35
 

Correlation between Activity and Domain Complementation in Adenylyl Cyclase Demonstrated with a Novel FRET Sensor

M. Ritt and S. Sivaramakrishnan. Molecular Pharmacology. April 2016, 89 (4) 407-412; doi: 10.1124/mol.115.101626 
 
Full TextLink   PDF

2015

publications_34



#34
 

Dynamic coupling and allosteric networks in the alpha subunit of heterotrimeric G proteins.

N.W. Griggs, L. Skjaerven, J.R. Traynor, S. Sivaramakrishnan, B.J. Grant. J. Biol. Chem. 2016, Feb; 291(9): 4742-4753 
Full TextLink   PDF
publications_33

 

 

 

#33
 

Using Protein Dimers to Maximize the Protein Hybridization Efficiency with Multisite DNA Origami Scaffolds.

Verma, L. Mallik, R.F. Hariadi, S. Sivaramakrishnan, G. Skiniotis, A.P. Joglekar. PLoS One 2015, Sep 8;10(9):e0137125. 
 
 
Full TextLink   PDF
Publications 32

#32
 

Mechanical coordination in motor ensembles revealed using engineered artificial myosin filaments.

R. F. Hariadi*, R. F. Sommese*, A. S. Adhikari, R. E. Taylor, S. Sutton, J. A. Spudich and S. Sivaramakrishnan Nature Nanotechnology 2015, Aug;10(8), :696-700. *Equal contribution.
 
Full TextLink   PDF

PubImages 31

 

#31

Cellular chirality arising from the self-organization of the actin cytoskeleton.

Y.H. Tee, T. Shemesh, V. Thiagarajan, R.F. Hariadi, K.L. Anderson, C. Page, N. Volkmann, D. Hanein, S. Sivaramakrishnan, M.M. Kozlov, A.D. Bershadsky. Nature Cell Biology 2015, 17(4), 445-57. 
 
Full TextLink   PDF  Cover
Publications 30

 

 

#30

The C2 domain and altered ATP-binding loop phosphorylation at Ser359 mediate the redox-dependent increase in Protein Kinase Cδ activity.

J. Gong, Y. Yao, P. Zhang, B. Udayasuryan, E.V. Komissarova, J. Chen, S. Sivaramakrishnan, J.E. Van Eyk, S.F. Steinberg. Mol Cell Biol. 2015 May;35(10):1727-40. doi: 10.1128/MCB.01436-14.
 
Full TextLink   PDF  
Publications 29

 

 

#29

Tuning myosin-driven sorting on cellular actin networks.

R.F. Hariadi, R. Sommese, S. Sivaramakrishnan eLife 2015;4:e05472 DOI: http://dx.doi.org/10.7554/eLife.05472 
 
Full TextLink   PDF 

2014

Publications 28

 

 

#28

A method for multiprotein assembly in cells reveals independent action of kinesins in complex.

S. R. Norris, V. Soppina, A. S. Dizaji, K. I. Schimert, D. Sept, D. Cai, S. Sivaramakrishnan, and K. J. Verhey Journal of Cell Biology 2014, 207(3), 393-406.  
 
Full TextLink   PDF 
Publications 27

 

#27

Optofluidic lasers with a single molecular layer of gain.

Q. Chen, M. Ritt, S. Sivaramakrishnan, Y.A. Sun and X. Fan Lab Chip, 2014,14, 4590-4595 DOI:10.1039/C4LC00872C
 
Full TextLink   PDF 
publications 26

 

#26

Natural Killer Cells Eradicate Galectin-1-Deficient Glioma in the Absence of Adaptive Immunity.

C.J. Baker, P. Chockley, V.N. Yadav, R. Doherty, M. Ritt, S. Sivaramakrishnan, M.G. Castro, and P.R. Lowenstein. Cancer Research 2014, 15;74(18), 5079-90.
 
Full TextLink   PDF 
publications 25

 

#25

Harnessing the unique structural properties of isolated α-helices.

C.J. Swanson and S. Sivaramakrishnan Journal of Biological Chemistry 2014, 12;289(37), 25460-7.
 
Full TextLink   PDF 
publications 24

 

#24

Conserved Modular Domains Team Up to Latch-Open Active PKCα.

C.J. Swanson, M. Ritt, W. Wang, M. Lang, A. Narayan, J. Tesmer, M. Westfall, S. Sivaramakrishnan Journal of Biological Chemistry 2014, 289(25), 17812-29.
 
Full TextLink   PDF 
Publiications 23

 

 

#23

Myosin lever arm directs collective motion on cellular actin network.

R.F. Hariadi, M. Cale, and S. Sivaramakrishnan. Proceedings of the National Academy of Sciences 2014, 111(11), 4091-6.
 
Full TextLink   PDF 

2013 

Publications 22

 

 

#22

Analyses of conformational states of the transporter associated with antigen processing (TAP) in a native cellular membrane environment.

J. Geng, S. Sivaramakrishnan and M. Raghavan Journal of Biological Chemistry 2013, 288, 37039-47.
 
Full TextLink   PDF 
Publications 21

 

 

#21

Agonist Activated PKCβII Translocation and Modulation of Cardiac Myocyte Contractile Function.

H. Hwang, D. Robinson, J. B. Rogers, T. K. Stevenson, S. E. Lang, S. Sadayappan, S. M. Day, S. Sivaramakrishnan S, M. V. Westfall.Scientific Reports 2013, 3:1971.
 
Full TextLink   PDF 
Publications 20

 

 

#20

Detection of G Protein-selective G Protein-coupled Receptor (GPCR) Conformations in Live Cells.

R.U. Malik , M. Ritt, B.T. Devree, R.R. Neubig, R.K. Sunahara, S. Sivaramakrishnan. Journal of Biological Chemistry 2013, 288(24), 17167-78.
 
Full TextLink   PDF 
Publications 19

 

#19

Highly sensitive fluorescent protein FRET detection using optofluidic lasers.

Q. Chen , X. Zhang , Y. Sun , M. Ritt , S. Sivaramakrishnan and X. Fan. Lab on a Chip 2013, 13(14), 2679-81.
 
Full TextLink   PDF 
Publications 18

 

#18

Visualizing and manipulating focal adhesion kinase regulation in live cells.

M. Ritt, J.L. Guan, S. Sivaramakrishnan.Journal of Biological Chemistry 2013, 288(13), 8875-86.
 
Full TextLink   PDF 

2012

Publications 17

 

 

#17

Cell-intrinsic functional effects of the α-cardiac myosin Arg-403-Gln mutation in familial hypertrophic cardiomyopathy.

P. Chuan, S. Sivaramakrishnan, E.A. Ashley, J.A. Spudich. Biophysical Journal 2012, 102(12), 2782-2790.
 
Full TextLink   PDF 
Publications 16

 

 

#16

Dual-beam optical tweezers.

S. Sivaramakrishnan, J. Sung, A. Dunn, J.A. Spudich. Encyclopedia of Biophysics, Ed. Gordon Roberts, Springer.
 
Full TextPDF 

2011

Publications 15

 

 

 

#15

Systematic control of protein interaction using a modular ER/K α-helix linker.

S. Sivaramakrishnan, J. A. Spudich,Proceedings of the National Academy of Sciences, USA 2011, 108(51), 20467-72.
 
Full TextLink    PDF  Commentary 
Publications 14

 

 

#14

Principles of unconventional myosin function and targeting.

M. Hartman, D. Finan, S. Sivaramakrishnan, J. A. Spudich,Ann. Rev. Cell Dev. Biol 2011, 27, 133-55.
 
Full TextLink   PDF 

2010 and earlier

Publications 13

 

 

#13

Helicity of short E-R/K peptides.

R. F. Sommese, S. Sivaramakrishnan, R. L. Baldwin, and J. A. Spudich, Protein Science2010, 19(10), 2001-5.
 
Full TextLink   PDF
Publications 12

 

 

 

#12

Single-molecule dual-beam optical trap analysis of protein structure and function.

J. Sung, S. Sivaramakrishnan, A. Dunn, J.A. Spudich, Methods in Enzymology 2010, 475, 321-75.
 
Full TextLink   PDF 
Publications 11

 

 

 

#11

Myosin VI: an innovative motor that challenged the swinging lever arm hypothesis.

S. Sivaramakrishnan, J.A. Spudich, Nature Reviews: Molecular and Cellular Biology 2010, 11(2), 128-37
 
Full TextLink   PDF 

Publications 10

 

 

#10

Combining single molecule optical trapping and small angle X-ray scattering measurements to compute the persistence length of a protein ER/K alpha-helix.

S. Sivaramakrishnan, J. Sung, M. Ali, S. Doniach, H. Flyvbjerg, J. A. Spudich, Biophysical Journal 2009, 97(1-7), 2993-9
 
Full TextLink   PDF 
Publications 9

 

 

#9

Coupled myosin VI motors facilitate unidirectional movement on an F-actin network.

S. Sivaramakrishnan, J.A. Spudich,Journal of Cell Biology 2009, 187(1), 53-60 DOI: 10.1083/jcb.200906133
 
Full TextLink   PDF  In Focus 
Publications 8

 

#8

Insights into human beta-cardiac myosin function from single molecule and single cell studies.

S. Sivaramakrishnan, E. Ashley, L. Leinwand, J.A. Spudich, J. J Cardiovasc Transl Res. 2009 Dec; 2(4): 426–440. doi:  10.1007/s12265-009-9129-2
 
Full TextLink   PDF   
Publications 5

 

 

#7

Shear stress induced reorganization of the keratin intermediate filament network requires PKC zeta.

S. Sivaramakrishnan, J.L. Schneider, A. Sitikov, R.D. Goldman, K.M. Ridge, Molecular Biology of the Cell, 2009, 20(11), 2755-65.. 
 
Full TextLink   PDF
Publications 7

 

#6

Dynamic charge interactions create surprising rigidity in the ER/K alpha-helical protein motif.

S. Sivaramakrishnan, B. J. Spink, A. Y. L. Sim, S. Doniach, J. A. Spudich, Proceedings of the National Academy of Sciences, USA, 2008, 105(36), 13356-61. 
 
Full TextLink   PDF 
Publications 6

 

#5

Long single alpha-helical tail domains bridge the gap between structure and function of myosin VI.

B.J. Spink, S. Sivaramakrishnan, J. Lipfert, S. Doniach, J.A. Spudich, Nature: Structural and Molecular Biology, 2008, 15(6), 591-97. 
 
Full TextLink   PDF 
Publications 4

 

#4

Micromechanical properties of keratin intermediate filament networks.

S. Sivaramakrishnan, J.V. DeGuilio, L. Lorand, R.D. Goldman, K.M. Ridge, Proceedings of the National Academy of Sciences, USA, 2008, 105(3), 2755-65.
 
Full TextLink  PDF  Commentary 
Publications 3

 

 

#3

Computational and Experimental Study of Turbulent Flow in a 0.4-Scale Water Model of a Continuous Steel Caster.

Q. Yuan, S. Sivaramakrishnan, S.P. Vanka, B.G. Thomas, Metallurgical and Materials Transactions B, 2004, 35(5), 967-982(16).
 
Full TextLink  PDF 
Publications 2

 

 

#2

Transient Fluid Flow in the Continuous Steel-slab Casting Mold.

B.G. Thomas, Q. Yuan, S. Sivaramakrishnan, S.P. Vanka. Journal of Metals - Electronic Edition, 2002, 54(1).
 
Full TextLink 
Publications 1

 

 

#1

Comparison of four methods to evaluate fluid velocities in a continuous slab casting mold.

B.G. Thomas, Q. Yuan, S. Sivaramakrishnan, T. Shi, S.P. Vanka and M.B. Assar, ISIJ Int., 2001, 41(10), 1262-1271.
 
Full Text: PDF