References:



Awakening guardian angels: drugging the p53 pathway CJ Brown, S Lain, CS Verma, AR Fersht, DP LaneNat Rev Cancer 9:862-73(2009)

The Mdm2 and p53 genes are conserved in Arachnids DP Lane, CF Cheok, C Brown, A Madhumalar, FJ Ghadessy, C Verma Cell Cycle (2010)

MDM2 and p53 are highly conserved from placozoans to man DP Lane, CF Cheok, C Brown, A Madhumalar, FJ Ghadessy, C Verma Cell Cycle (2010)

Rational design and biophysical characerization of thioredoxin-based aptamers: insights into peptide grafting CJ Brown, SG Dastidar, HY See, DW Coomber, M Ortiz-Lombardia, C Verma, DP lane J Mol Biol (2009)

Modulation of p53 binding to MDM2: computational studies reveal important roles of Tyr100 SG Dastidar, DP Lane, CS Verma BMC Bioinformatics (2009)

Differences in the trans- activation domains of p53 family members: a computational study MN Jagadeesh, A Madhumalar, RW Beuerman, DP Lane, CS Verma BMC Genomics (2009)

Forces mediating protein- protein interactions: a computational study of p53 "approaching" MDM2 SG Dastidar, A Madhumalar, G Fuentes, DP Lane, CS Verma Theor Chem Accts (2009)

Design of a novel MDM2 binding peptide based in the p3 family. A Madhumalar, HJ Lee, CJ Brown, DP Lane, C Verma Cell Cycle 8:2828-36 (2009)

Modulation of p53 binding to MDM2: computational studies reveal important roles of Tyr100. SG Ghosh, DP Lane, CS Verma BMC Bioinformatics (2009)

Structure-dependent charge density as a determinant of antimicrobial activity of peptide analogues of defensin Y. Bai, S Liu, P Jiang, L Zhou, J Li, C Tang, CS Verma, Y Mu, RW Beuerman, K Pervushi Biochemistry. 48:7229-39 (2009)

Crystallization of eIF4E complexed with eIFGI peptide and glycerol reveals distinct structural differences around the cap-binding site CJ Brown, CS Verma, MD Walkinshaw, DP Lane Cell Cycle. 8:1905-11 (2009)

Dimerization of the core domain of the p53 family: a computational study. A Madhumalar, HJ Lee, DP Lane, CS Verma Cell Cycle 8:137-148 (2009)

Lapatinib, a HER2 tyrosine kinase inhibitor, induces stabilization and accumulation of HER2 and potentiates trastuzumab-dependent cell cytotoxicity. M Scaltriti, C Verma, M Guzman, J Jimenez, JL Parra, K Pederson, DJ Smith, S Landolfi, SR y Cajal, J Arribas, J Baselga Oncogene 28:803-814 (2009)

Effect of structural parameters of peptides on dimer formation and highly oxidized side products in the oxidation of thiols of linear analogues of human b-defensins 3 by dumethyl sulfoxide S Liu, L Zhou, L Chen, SG Dastidar, C Verma, J Li, D Tan, R Beuerman J Pep Sci 15:95-106 (2009)

Multiple peptide conformations give rise to similar binding affinities: molecular simulations of p53-MDM2. S G Dastidar, D Lane, C Verma J Am Chem Soc 130:1351-13515 (2008)

The C-terminus of  PRK2/PKNg is required for optimal activation by RhoA in a GTP-dependent manner. W G Lim, X Chen, J-P Liu, B J Tan, S Zhou, A Smith, N Lees, L Hou, F Gu, X Y Yu, Y Du, D Smith, C Verma, K Liu, W Duan. Arch Biochem Biophys 479:170-178 (2008)

Theory and simulation. Editorial overview. J. Fernando-Recio, C Verma Current Opin Struct Biol 18:131-133 (2008)


pFelx-Ana: detecting conformational changes in remotely related proteins A. Nigham, L. Tucker-Kellogg, I Mihalek, C Verma, D Hsu  Nucleic Acid Res W246-251 (2008)

Molecular simulations of protein dynamics: new windows on mechanisms in biology G G Dodson, D P Lane, C Verma EMBO reports 9:144-150 (2008)

Generation of Nucleophilic Character in the Cys25/His159 Ion Pair of Papain Involves Trp177 but Not Asp158 S Gul, S Hussain, M P Thomas, M Resmini, C S Verma, E W Thomas, K Brocklehurst Biochemistry (2008)

The electrostatic surface of MDM2 modulates the specificity of its interaction with phosphorylated and unphosphorylated p53 peptides. C J Brown, D Srinivasan, L H Jun, D Coomber, C S Verma, D P Lane Cell Cycle 7:608-610 (2008)

Update on p53: modulation of p53 degradation as a therapeutic apporoach. A Dey, C S Verma, D P Lane.  British J Cancer 98:4-8 (2008)


Generation of nucleophilic characater in the Cys25/His159 ion pair involves Trp177 but not Asp158. S Gul, S. Hussain, M P. Thomas, M Resmini, C S Verma, E W Thomas, K Brocklehurst Biochemistry 47:2025-2035 (2008)

De Novo Linear Analogs of Human b-Defensin 3: Concept for Design of Antibacterial Peptides with Reduced Cytotoxicity to Mammalian Cells. S Liu, L Zhou, J Li,  A. Suresh, C.S. Verma, Y H Foo, E.Yap, D. Tan  and R.W. Beuerman  ChemBioChem 9:964-973 (2008)

Stability of the core domain of p53: insights from computer simulations A Madhumular, D J smith, C Verma.  BMC Bioinformatics 9:S17 (2008)


Modulation of the p53-MDM2 interaction by phosphorylation of Thr18: a computational study H J Lee, D Srinivasan, D Coomber, D P Lane, C S Verma Cell Cycle 6:2604-11 (2007)

Defensins: Antimicrobial peptides for therapeutic development C Verma, S Seebah, L Soo Mei, Z Lei, L Shou Ping, L Jing, R Beuerman  Bitoechn J 2:1353-9 (2007)

Substrate specificity of Cyclins determined by electrostatics H J Lee, G H Chua, A Krishnan, D. P. Lane. C. S. Verma Cell Cycle 6:2219-26 (2007)

Wavelet analysis of protein dynamics K H Kiat, H J Lee, B Veeravalli, C Verma Lecture Notes in Bioinformatics (2007)


Enthalpic and entropic contributions in the transesterification of sucrose: computational study of lipases and subtilisin G. Fuentes, A. Ballesteros, C S Verma J Biomol Str Dyn 25:145-55 (2007)

On the resolution of chiral substrates by a retro-Claisenase enzyme. Biotransformations of heteroannular bicylcic b-diketones by 6-oxo camphor hydrolase. C. L. Hill, C. H. Lee, D. J. Smith, C. S. Verma, G. Grogan Adv Synth Catal 349:1353-60 (2007)


Desymmetrisations of 1-alkylbicyclo[3.3.0]octane-2,8-diones by enzymatic retro-Claisen reaction yield optically enriched 2,3-substituted cyclopentanones. C. L. Hill, C. S. Verma, Gideon Grogan Adv Synth Catal 349:916-24 (2007) 

Hydration of hydrophobic moieties: A simulation study of interleukin-1beta  S Somani, C. P Chng, C. S. Verma. Proteins: Str Fn Gen 67:868 (2007)

Defensins Knowledgebase: A manually curated database and information source focused on the defensins family of antimicrobial peptides S. Seebah, A. Suresh, R. Beuerman, C. S. Verma.  Nucleic Acid Research 35:D265 (2007)

The crystal structure of superoxide dismutase from Plasmodium falciparum. I.W. Boucher, A.M. Brzozowski, J.A. Brannigan, C. Schnick, D.J. Smith, S.A. Kyes, S. & A.J. Wilkinson, BMC Structural Biology 6:20 (2006).

Oligomerization in defensins: a modelling study across mammals  A Suresh, C Verma
BMC Bioinformatics 7:S17 (2006)

Structural Basis of the Sulfate Starvation Response in E. coli: Crystal Structure and Mutational Analysis of the Cofactor-Binding Domain of the Cbl Transcriptional Regulator E Stec; M Witkowska-Zimny; M M Hryniewicz; P Neumann; A J. Wilkinson; A M. Brzozowski; C S. Verma; J Zaim; G D. Bujacz  J Mol Biol 364:309-322 (2006).

The last ten amino acid residues beyond the hydrophobic motif are critical for the catalytic competence and function of protein kinase Ca. S. S. Yeong, Y. Zhu, D. Smith, C. Verma, W. G. Lim, B. J. Tan, J. A. Armstrong, S. Zhou, S-L Tan, N.S. Cheung & W. Duan  J. Biol. Chem 281:30768-30781 (2006)

The 1.8 Å resolution structure of hydroxycinnamoyl-coenzyme A hydratase-lyase (HCHL) from Pseudomonas fluorescens, an enzyme that catalyses the transformation of feruloyl-coenzyme A to vanillin Leonard PM, Brzozowski AM, Lebedev A, Marshall CM, Smith, DJ, Verma, CS, Walton, NJ and Grogan G  Acta Cryst. D62, 1494-1501 (2006)

Proteins as data storage devices: insights from computer models  M. Ortiz-Lombardia, C S Verma J Phys: Conf Ser 34 7-14 (2006)

The very C-terminus of PRK1/PRK is essential for its activation by RhoA and downstream signalling.  W. G. Lim, B. J. Tan, Y Zhu, S. Zhou, J. S. Armstrong, Q. T. Li, Q. Dong, E. Chan, D. Smith, C. Verma,  S-L Tan & W. Duan  Cellular Signalling 18:1473-1481 (2006)
The very C-terminus of protein kinase Ca is critical for the full catalytic competence but its hydrophobic motif is dispensable for the interaction with 3-phosphoinositide-dependant kinase-1. Y. Zhu, D. Smith, C. Verma,  W. G. Lim, B. J. Tan, J. S. Armstrong, S. Zhou, E. Chan, S-L Tan, Y-Z Zhu, N. S. Cheung & W. Duan Cellular Signalling 18:807-818 (2006)
Molecular Dynamics Simulations of the M. tuberculosis chaperonin-10: the role of metal ions S. Vijayakrishnan, R. Qaamra, C. S. Verma, R. Sen & S. Mande  J Biomol Str Dyn 23:365-375 (2006)
Protein flexibility: role in structure and mechanism revealed by molecular simulations G G Dodson & C S Verma. Cell Mol Life Sci  63:207-219 (2006)
Conformational flexibility of M. tuberculosis Thiredoxin reductase: crystal structure and normal mode analysis M. Akif, K. Suhre, C. Verma & S.C. Mande  Acta Cryst Sect D   D61:1603-1611 (2005)

Characterisation of the transferrin cisplatin-binding site using mass spectrometry and molecular modelling C. S. Allardyce, P. J. Dyson, C. S. Verma, J. Coffey & N. Johnson.  ChemBioChem  6 1788-1795 (2005)

Electrostatics of cytochrome-c assemblies V. Renugopalakrishnan, M Ortiz-Lombardia, C Verma  J Mol Model.11 :265-270 (2005)

Rational design of thermally stable proteins: relevance to Bionanotechnology V. Renugopalakrishnan, R. Guardino-Juarez, G. Narasimhan, C. S. Verma, X. Wei & P. Li . J. Nanosci Nanotechn. 5:1759-1767 (2005).

Prion dry spots and water hot spots: key roles for structural stability A. De Simone, G. G. Dodson, C. S. Verma, A. Zagari, F. Fratarnali.  Proc Natl Acad Sci USA 102:7535-7540 (2005)

Comparative study of overlapping genes in bacteria, with special reference to Rickettsia prowazekii and Rickettsia conorii K R Sakharkar, M K Sakharkar, C Verma, V T K Chow  Int J Syst Evol Microbiol. 55 1205-9 (2005)

Protein stability & ligand binding: new paradigms from in-silico experiments C S Verma & S Fischer , Biophys Chem 115 295-302 (2005)

A Density Functional Study of the Heme Moiety of Cytochrome c  A. Kumar, P. C. Mishra, M. Durai, C. S. Verma and V. Renugopalakrishnan Int J Quant Chem 102 1002-1009 (2005)

Dynamic control of specificity in enzymes: computational study of transesterification of sucrose using lipases G. L. Fuentes, A. R. Ballesteros & C. S. Verma  Protein Science 13 3092-3103  (2004)

Altered ionisation of the B13-Glu in insulin mutants: a computational analysis.   R. B. Greaves, G. G. Dodson, C. S. Verma. Protein Eng. Des. Sel. 17  557 – 563 (2004)

Distinct modes of recognition of FXXLF and LXXLL motifs by the androgen receptor  H. J. Dubbink, R. Hersmus, M. van Royen, C. S. Verma­­­­, J. van Tol, A. C. J. Ziel-van der Made, A. O. Brinkmann, A. B. Houtsmuller, A. C.W. Pike, J. Trapman Molecular Endocrinology 18 2132-2150 (2004).

Crystallographic analysis and solution studies of N-lithocholyl insulin: a new generation of prolonged-acting insulins J. L. Whittingham, I. Jonassen, S. Havelund, S. M. Roberts, E. J. Dodson, C. S. Verma and G. G. Dodson.  Biochemistry 43 5987-5995 (2004)

Cytochrome C: The effect of temperature and pressure from molecular dynamics simulations M. Prabhakaran, S. H. Gursahani, C. S. Verma, R. Garduno- Juarez, and V. Renugopalakrishnan.  J. Phys. Chem. Solids 65 1615-1622 (2004)

The crystal strucure of a truncated sheep prion protein L. F. Haire, S. M. Whyte, N. Vashisht, A. C. Gill, C. Verma, E. J. Dodson, G. G. Dodson and P. M. Bayley.  J. Mol. Biol 336 1175-1183 (2004).