©2019 by Veprintsev Lab.

Publications

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2019


GAVRIILIDOU, AGNI F. M., HUNZIKER, HANNA, MAYER, DANIEL, VUCKOVIC, ZIVA, VEPRINTSEV, DMITRY B. and ZENOBI, RENATO, 2019. Insights into the Basal Activity and Activation Mechanism of the 1 Adrenergic Receptor Using Native Mass Spectrometry JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 30(3), 529-537

MAYER D, DAMBERGER FF, SAMARASIMHAREDDY M, FELDMUELLER M, VUCKOVIC Z, FLOCK T, BAUER B, MUTT E, ZOSEL F, ALLAIN, FHT, STANDFUSS J, SCHERTLER, GFX, DEUPI X, SOMMER ME, HUREVICH M, FRIEDLER A, and VEPRINTSEV DB, 2019. Distinct G protein-coupled receptor phosphorylation motifs modulate arrestin affinity and activation and global conformation NATURE COMMUNICATIONS. 10 (1), 1261

SAMARASIMHAREDDY M, MAYER D, METANIS N, VEPRINTSEV D, HUREVICH M and FRIEDLER A, 2019. A targeted approach for the synthesis of multi-phosphorylated peptides: a tool for studying the role of phosphorylation patterns in proteins. Organic & biomolecular chemistry 17 (42), 9284-9290

2018

GAVRIILIDOU AFM, HOLDING FP, MAYER D, COYLE JE, VEPRINTSEV DB and ZENOBI R, 2018. Native Mass Spectrometry Gives Insight into the Allosteric Binding Mechanism of M2 Pyruvate Kinase to Fructose-1,6-Bisphosphate. Biochemistry. Biochemistry 57 (11), 1685-1689

ZIEMSKI M, JOMAA A, MAYER DANIEL, RUTZ S, GIESE C, VEPRINTSEV D, and WEBER-BAN E, 2018. Cdc48-like protein of actinobacteria (Cpa) is a novel proteasome interactor in mycobacteria and related organisms ELIFE. 7,

2017

HEYDENREICH FM, MILJUŠ T, JAUSSI R, BENOIT R, MILIĆ D and VEPRINTSEV DB, 2017. High-throughput mutagenesis using a two-fragment PCR approach. Scientific reports. 7(1), 6787

RADLI M, VEPRINTSEV DB and RÜDIGER SGD, 2017. Production and purification of human Hsp90β in Escherichia coli. PloS one. 12(6), e0180047

BEAUTRAIT A, PARADIS JS, ZIMMERMAN B, GIUBILARO J, NIKOLAJEV L, ARMANDO S, KOBAYASHI H, YAMANI L, NAMKUNG Y, HEYDENREICH FM, KHOURY E, AUDET M, ROUX PP, VEPRINTSEV DB, LAPORTE SA and BOUVIER M, 2017. A new inhibitor of the β-arrestin/AP2 endocytic complex reveals interplay between GPCR internalization and signalling. Nature communications. 8, 15054

2016

VENKATAKRISHNAN AJ, DEUPI X, LEBON G, HEYDENREICH FM, FLOCK T, MILJUS T, BALAJI S, BOUVIER M, VEPRINTSEV DB, TATE CG, SCHERTLER GF and BABU MM, 2016. Diverse activation pathways in class A GPCRs converge near the G-protein-coupling region. Nature. 536(7617), 484-7

ISOGAI S, DEUPI X, OPITZ C, HEYDENREICH FM, TSAI CJ, BRUECKNER F, SCHERTLER GF, VEPRINTSEV DB and GRZESIEK S, 2016. Backbone NMR reveals allosteric signal transduction networks in the β1-adrenergic receptor. Nature. 530(7589), 237-41

2015

SUN D, FLOCK T, DEUPI X, MAEDA S, MATKOVIC M, MENDIETA S, MAYER D, DAWSON R, SCHERTLER GFX, MADAN BABU M and VEPRINTSEV DB, 2015. Probing Gαi1 protein activation at single-amino acid resolution. Nature structural & molecular biology. 22(9), 686-694

FLOCK T, RAVARANI CNJ, SUN D, VENKATAKRISHNAN AJ, KAYIKCI M, TATE CG, VEPRINTSEV DB and BABU MM, 2015. Universal allosteric mechanism for Gα activation by GPCRs. Nature. 524(7564), 173-179


HEYDENREICH FM, VUCKOVIC Z, MATKOVIC M and VEPRINTSEV DB, 2015. Stabilization of G protein-coupled receptors by point mutations. Frontiers in pharmacology. 6, 82

2014

MILIĆ D and VEPRINTSEV DB, 2015. Large-scale production and protein engineering of G protein-coupled receptors for structural studies. Frontiers in pharmacology. 6, 66

KORKHOV VM, MIREKU SA, VEPRINTSEV DB and LOCHER KP, 2014. Structure of AMP-PNP-bound BtuCD and mechanism of ATP-powered vitamin B12 transport by BtuCD-F. Nature structural & molecular biology. 21(12), 1097-9


MAEDA S, SUN D, SINGHAL A, FOGGETTA M, SCHMID G, STANDFUSS J, HENNIG M, DAWSON RJ, VEPRINTSEV DB and SCHERTLER GF, 2014. Crystallization scale preparation of a stable GPCR signaling complex between constitutively active rhodopsin and G-protein. PloS one. 9(6), e98714


KARAGÖZ GE, DUARTE AM, AKOURY E, IPPEL H, BIERNAT J, MORÁN LUENGO T, RADLI M, DIDENKO T, NORDHUES BA, VEPRINTSEV DB, DICKEY CA, MANDELKOW E, ZWECKSTETTER M, BOELENS R, MADL T and RÜDIGER SG, 2014. Hsp90-Tau complex reveals molecular basis for specificity in chaperone action. Cell. 156(5), 963-74


2013

SUN D, OSTERMAIER MK, HEYDENREICH FM, MAYER D, JAUSSI R, STANDFUSS J and VEPRINTSEV DB, 2013. AAscan, PCRdesign and MutantChecker: a suite of programs for primer design and sequence analysis for high-throughput scanning mutagenesis. PloS one. 8(10), e78878


SEN I, VEPRINTSEV D, AKHMANOVA A and STEINMETZ MO, 2013. End binding proteins are obligatory dimers. PloS one. 8(9), e74448


SINGHAL A, OSTERMAIER MK, VISHNIVETSKIY SA, PANNEELS V, HOMAN KT, TESMER JJ, VEPRINTSEV D, DEUPI X, GUREVICH VV, SCHERTLER GF and STANDFUSS J, 2013. Insights into congenital stationary night blindness based on the structure of G90D rhodopsin. EMBO reports. 14(6), 520-6


SÁNCHEZ-BARRENA MJ, VALLIS Y, CLATWORTHY MR, DOHERTY GJ, VEPRINTSEV DB, EVANS PR and MCMAHON HT, 2013. Bin2 is a membrane sculpting N-BAR protein that influences leucocyte podosomes, motility and phagocytosis. PloS one. 7(12), e52401


2012

BRANDT T, TOWNSLEY FM, TEUFEL DP, FREUND SM and VEPRINTSEV DB, 2012. Molecular basis for modulation of the p53 target selectivity by KLF4. PloS one. 7(10), e48252

BUEY RM, SEN I, KORTT O, MOHAN R, GFELLER D, VEPRINTSEV D, KRETZSCHMAR I, SCHEUERMANN J, NERI D, ZOETE V, MICHIELIN O, DE PEREDA JM, AKHMANOVA A, VOLKMER R and STEINMETZ MO, 2012. Sequence determinants of a microtubule tip localization signal (MtLS). The Journal of biological chemistry. 287(34), 28227-42


VOGEL SM, BAUER MR, JOERGER AC, WILCKEN R, BRANDT T, VEPRINTSEV DB, RUTHERFORD TJ, FERSHT AR and BOECKLER FM, 2012. Lithocholic acid is an endogenous inhibitor of MDM4 and MDM2. Proceedings of the National Academy of Sciences of the United States of America. 109(42), 16906-10


GABIZON R, BRANDT T, SUKENIK S, LAHAV N, LEBENDIKER M, SHALEV DE, VEPRINTSEV D and FRIEDLER A, 2012. Specific recognition of p53 tetramers by peptides derived from p53 interacting proteins. PloS one. 7(5), e38060


BRANDT T, KAAR JL, FERSHT AR and VEPRINTSEV DB, 2012. Stability of p53 homologs. PloS one. 7(10), e47889


DE LA ROCHE M, RUTHERFORD TJ, GUPTA D, VEPRINTSEV DB, SAXTY B, FREUND SM and BIENZ M, 2012. An intrinsically labile α-helix abutting the BCL9-binding site of β-catenin is required for its inhibition by carnosic acid. Nature communications. 3, 680


2011

ARBELY E, NATAN E, BRANDT T, ALLEN MD, VEPRINTSEV DB, ROBINSON CV, CHIN JW, JOERGER AC and FERSHT AR, 2011. Acetylation of lysine 120 of p53 endows DNA-binding specificity at effective physiological salt concentration. Proceedings of the National Academy of Sciences of the United States of America. 108(20), 8251-6


VAN BREUGEL M, HIRONO M, ANDREEVA A, YANAGISAWA HA, YAMAGUCHI S, NAKAZAWA Y, MORGNER N, PETROVICH M, EBONG IO, ROBINSON CV, JOHNSON CM, VEPRINTSEV D and ZUBER B, 2011. Structures of SAS-6 suggest its organization in centrioles. Science (New York, N.Y.). 331(6021), 1196-9


ROSSMANN M, SUKUMARAN M, PENN AC, VEPRINTSEV DB, BABU MM and GREGER IH, 2011. Subunit-selective N-terminal domain associations organize the formation of AMPA receptor heteromers. The EMBO journal. 30(5), 959-71


EUSTERMANN S, VIDELER H, YANG JC, COLE PT, GRUSZKA D, VEPRINTSEV D and NEUHAUS D, 2011. The DNA-binding domain of human PARP-1 interacts with DNA single-strand breaks as a monomer through its second zinc finger. Journal of molecular biology. 407(1), 149-70


2010 and earlier

MELERO R, RAJAGOPALAN S, LÁZARO M, JOERGER AC, BRANDT T, VEPRINTSEV DB, LASSO G, GIL D, SCHERES SH, CARAZO JM, FERSHT AR and VALLE M, 2010. Electron microscopy studies on the quaternary structure of p53 reveal different binding modes for p53 tetramers in complex with DNA. Proceedings of the National Academy of Sciences of the United States of America. 108(2), 557-62


FIGUEIRA AC, POLIKARPOV I, VEPRINTSEV D and SANTOS GM, 2010. Dissecting the Relation between a nuclear receptor and GATA: binding affinity studies of thyroid hormone receptor and GATA2 on TSHβ promoter. PloS one. 5(9), e12628


OLIVA MA, HALBEDEL S, FREUND SM, DUTOW P, LEONARD TA, VEPRINTSEV DB, HAMOEN LW and LÖWE J, 2010. Features critical for membrane binding revealed by DivIVA crystal structure. The EMBO journal. 29(12), 1988-2001


VAN DIECK J, BRANDT T, TEUFEL DP, VEPRINTSEV DB, JOERGER AC and FERSHT AR, 2010. Molecular basis of S100 proteins interacting with the p53 homologs p63 and p73. Oncogene. 29(14), 2024-35

BRANDT T, PETROVICH M, JOERGER AC and VEPRINTSEV DB, 2009. Conservation of DNA-binding specificity and oligomerisation properties within the p53 family. BMC genomics. 10, 628


JOERGER AC, RAJAGOPALAN S, NATAN E, VEPRINTSEV DB, ROBINSON CV and FERSHT AR, 2009. Structural evolution of p53, p63, and p73: implication for heterotetramer formation. Proceedings of the National Academy of Sciences of the United States of America. 106(42), 17705-10


LAMBERT JM, GORZOV P, VEPRINTSEV DB, SÖDERQVIST M, SEGERBÄCK D, BERGMAN J, FERSHT AR, HAINAUT P, WIMAN KG and BYKOV VJ, 2009. PRIMA-1 reactivates mutant p53 by covalent binding to the core domain. Cancer cell. 15(5), 376-88


VAN DIECK J, FERNANDEZ-FERNANDEZ MR, VEPRINTSEV DB and FERSHT AR, 2009. Modulation of the oligomerization state of p53 by differential binding of proteins of the S100 family to p53 monomers and tetramers. The Journal of biological chemistry. 284(20), 13804-11


RAJAGOPALAN S, JAULENT AM, WELLS M, VEPRINTSEV DB and FERSHT AR, 2008. 14-3-3 activation of DNA binding of p53 by enhancing its association into tetramers. Nucleic acids research. 36(18), 5983-91


BOECKLER FM, JOERGER AC, JAGGI G, RUTHERFORD TJ, VEPRINTSEV DB and FERSHT AR, 2008. Targeted rescue of a destabilized mutant of p53 by an in silico screened drug. Proceedings of the National Academy of Sciences of the United States of America. 105(30), 10360-5


ROTEM S, KATZ C, BENYAMINI H, LEBENDIKER M, VEPRINTSEV D, RÜDIGER S, DANIELI T and FRIEDLER A, 2008. The structure and interactions of the proline-rich domain of ASPP2. The Journal of biological chemistry. 283(27), 18990-9


GHAZI-TABATABAI S, SAKSENA S, SHORT JM, POBBATI AV, VEPRINTSEV DB, CROWTHER RA, EMR SD, EGELMAN EH and WILLIAMS RL, 2008. Structure and disassembly of filaments formed by the ESCRT-III subunit Vps24. Structure (London, England : 1993). 16(9), 1345-56


GARCÍA-ALAI MM, TIDOW H, NATAN E, TOWNSLEY FM, VEPRINTSEV DB and FERSHT AR, 2008. The novel p53 isoform "delta p53" is a misfolded protein and does not bind the p21 promoter site. Protein science : a publication of the Protein Society. 17(10), 1671-8


PETROVICH M and VEPRINTSEV DB, 2008. Effects of CpG methylation on recognition of DNA by the tumour suppressor p53. Journal of molecular biology. 386(1), 72-80


VAN DEN ENT F, VINKENVLEUGEL TM, IND A, WEST P, VEPRINTSEV D, NANNINGA N, DEN BLAAUWEN T and LÖWE J, 2008. Structural and mutational analysis of the cell division protein FtsQ. Molecular microbiology. 68(1), 110-23


VEPRINTSEV DB and FERSHT AR, 2008. Algorithm for prediction of tumour suppressor p53 affinity for binding sites in DNA. Nucleic acids research. 36(5), 1589-98


HAYOUKA Z, ROSENBLUH J, LEVIN A, LOYA S, LEBENDIKER M, VEPRINTSEV D, KOTLER M, HIZI A, LOYTER A and FRIEDLER A, 2007. Inhibiting HIV-1 integrase by shifting its oligomerization equilibrium. Proceedings of the National Academy of Sciences of the United States of America. 104(20), 8316-21


GILL DJ, TEO H, SUN J, PERISIC O, VEPRINTSEV DB, VALLIS Y, EMR SD and WILLIAMS RL, 2007. Structural studies of phosphoinositide 3-kinase-dependent traffic to multivesicular bodies. Biochemical Society symposium. 47-57


GILL DJ, TEO H, SUN J, PERISIC O, VEPRINTSEV DB, EMR SD and WILLIAMS RL, 2007. Structural insight into the ESCRT-I/-II link and its role in MVB trafficking. The EMBO journal. 26(2), 600-12


TIDOW H, VEPRINTSEV DB, FREUND SM and FERSHT AR, 2006. Effects of oncogenic mutations and DNA response elements on the binding of p53 to p53-binding protein 2 (53BP2). The Journal of biological chemistry. 281(43), 32526-33


TEO H, GILL DJ, SUN J, PERISIC O, VEPRINTSEV DB, VALLIS Y, EMR SD and WILLIAMS RL, 2006. ESCRT-I core and ESCRT-II GLUE domain structures reveal role for GLUE in linking to ESCRT-I and membranes. Cell. 125(1), 99-111


VEPRINTSEV DB, FREUND SM, ANDREEVA A, RUTLEDGE SE, TIDOW H, CAÑADILLAS JM, BLAIR CM and FERSHT AR, 2006. Core domain interactions in full-length p53 in solution. Proceedings of the National Academy of Sciences of the United States of America. 103(7), 2115-9


YU GW, RUDIGER S, VEPRINTSEV D, FREUND S, FERNANDEZ-FERNANDEZ MR and FERSHT AR, 2006. The central region of HDM2 provides a second binding site for p53. Proceedings of the National Academy of Sciences of the United States of America. 103(5), 1227-32


EKBLAD CM, CHAVALI GB, BASU BP, FREUND SM, VEPRINTSEV D, HUGHES-DAVIES L, KOUZARIDES T, DOHERTY AJ and ITZHAKI LS, 2005. Binding of EMSY to HP1beta: implications for recruitment of HP1beta and BS69. EMBO reports. 6(7), 675-80


FRIEDLER A, VEPRINTSEV DB, FREUND SM, VON GLOS KI and FERSHT AR, 2005. Modulation of binding of DNA to the C-terminal domain of p53 by acetylation. Structure (London, England : 1993). 13(4), 629-36


FERNANDEZ-FERNANDEZ MR, VEPRINTSEV DB and FERSHT AR, 2005. Proteins of the S100 family regulate the oligomerization of p53 tumor suppressor. Proceedings of the National Academy of Sciences of the United States of America. 102(13), 4735-40


CHAVALI GB, EKBLAD CM, BASU BP, BRISSETT NC, VEPRINTSEV D, HUGHES-DAVIES L, KOUZARIDES T, ITZHAKI LS and DOHERTY AJ, 2005. Crystal structure of the ENT domain of human EMSY. Journal of molecular biology. 350(5), 964-73


WEINBERG RL, VEPRINTSEV DB, BYCROFT M and FERSHT AR, 2005. Comparative binding of p53 to its promoter and DNA recognition elements. Journal of molecular biology. 348(3), 589-96


SÁNCHEZ-PUIG N, VEPRINTSEV DB and FERSHT AR, 2005. Binding of natively unfolded HIF-1alpha ODD domain to p53. Molecular cell. 17(1), 11-21


JOERGER AC, ANG HC, VEPRINTSEV DB, BLAIR CM and FERSHT AR, 2005. Structures of p53 cancer mutants and mechanism of rescue by second-site suppressor mutations. The Journal of biological chemistry. 280(16), 16030-7


SÁNCHEZ-PUIG N, VEPRINTSEV DB and FERSHT AR, 2005. Human full-length Securin is a natively unfolded protein. Protein science : a publication of the Protein Society. 14(6), 1410-8


FRIEDLER A, VEPRINTSEV DB, RUTHERFORD T, VON GLOS KI and FERSHT AR, 2004. Binding of Rad51 and other peptide sequences to a promiscuous, highly electrostatic binding site in p53. The Journal of biological chemistry. 280(9), 8051-9


WEINBERG RL, FREUND SM, VEPRINTSEV DB, BYCROFT M and FERSHT AR, 2004. Regulation of DNA binding of p53 by its C-terminal domain. Journal of molecular biology. 342(3), 801-11


GONZÁLEZ B, SCHELL MJ, LETCHER AJ, VEPRINTSEV DB, IRVINE RF and WILLIAMS RL, 2004. Structure of a human inositol 1,4,5-trisphosphate 3-kinase: substrate binding reveals why it is not a phosphoinositide 3-kinase. Molecular cell. 15(5), 689-701


WEINBERG RL, VEPRINTSEV DB and FERSHT AR, 2004. Cooperative binding of tetrameric p53 to DNA. Journal of molecular biology. 341(5), 1145-59


TEO H, VEPRINTSEV DB and WILLIAMS RL, 2004. Structural insights into endosomal sorting complex required for transport (ESCRT-I) recognition of ubiquitinated proteins. The Journal of biological chemistry. 279(27), 28689-96


JESPERS L, SCHON O, JAMES LC, VEPRINTSEV D and WINTER G, 2004. Crystal structure of HEL4, a soluble, refoldable human V(H) single domain with a germ-line scaffold. Journal of molecular biology. 337(4), 893-903


EKBLAD CM, FRIEDLER A, VEPRINTSEV D, WEINBERG RL and ITZHAKI LS, 2004. Comparison of BRCT domains of BRCA1 and 53BP1: a biophysical analysis. Protein science : a publication of the Protein Society. 13(3), 617-25


CHEN YW, ALLEN MD, VEPRINTSEV DB, LÖWE J and BYCROFT M, 2003. The structure of the AXH domain of spinocerebellar ataxin-1. The Journal of biological chemistry. 279(5), 3758-65


PANIC B, PERISIC O, VEPRINTSEV DB, WILLIAMS RL and MUNRO S, 2003. Structural basis for Arl1-dependent targeting of homodimeric GRIP domains to the Golgi apparatus. Molecular cell. 12(4), 863-74


FRIEDLER A, VEPRINTSEV DB, HANSSON LO and FERSHT AR, 2003. Kinetic instability of p53 core domain mutants: implications for rescue by small molecules. The Journal of biological chemistry. 278(26), 24108-12


RUDIGER S, FREUND SM, VEPRINTSEV DB and FERSHT AR, 2002. CRINEPT-TROSY NMR reveals p53 core domain bound in an unfolded form to the chaperone Hsp90. Proceedings of the National Academy of Sciences of the United States of America. 99(17), 11085-90


RIPPIN TM, FREUND SM, VEPRINTSEV DB and FERSHT AR, 2002. Recognition of DNA by p53 core domain and location of intermolecular contacts of cooperative binding. Journal of molecular biology. 319(2), 351-8


FRIEDLER A, HANSSON LO, VEPRINTSEV DB, FREUND SM, RIPPIN TM, NIKOLOVA PV, PROCTOR MR, RÜDIGER S and FERSHT AR, 2002. A peptide that binds and stabilizes p53 core domain: chaperone strategy for rescue of oncogenic mutants. Proceedings of the National Academy of Sciences of the United States of America. 99(2), 937-42


PERMYAKOV SE, UVERSKY VN, VEPRINTSEV DB, CHERSKAYA AM, BROOKS CL, PERMYAKOV EA and BERLINER LJ, 2001. Mutating aspartate in the calcium-binding site of alpha-lactalbumin: effects on the protein stability and cation binding. Protein engineering. 14(10), 785-9


ALTAMIRANO MM, WOOLFSON A, DONDA A, SHAMSHIEV A, BRISEÑO-ROA L, FOSTER NW, VEPRINTSEV DB, DE LIBERO G, FERSHT AR and MILSTEIN C, 2001. Ligand-independent assembly of recombinant human CD1 by using oxidative refolding chromatography. Proceedings of the National Academy of Sciences of the United States of America. 98(6), 3288-93


PERMYAKOV SE, VEPRINTSEV DB, BROOKS CL, PERMYAKOV EA and BERLINER LJ, 2000. Zinc binding in bovine alpha-lactalbumin: sequence homology may not be a predictor of subtle functional features. Proteins. 40(1), 106-11


VEPRINTSEV DB, NARAYAN M, PERMYAKOV SE, UVERSKY VN, BROOKS CL, CHERSKAYA AM, PERMYAKOV EA and BERLINER LJ, 1999. Fine tuning the N-terminus of a calcium binding protein: alpha-lactalbumin. Proteins. 37(1), 65-72


PERMYAKOV EA, VEPRINTSEV DB, DEIKUS GY, PERMYAKOV SE, KALINICHENKO LP, GRISHCHENKO VM and BROOKS CL, 1997. pH-induced transition and Zn2+-binding properties of bovine prolactin. FEBS letters. 405(3), 273-6


VEPRINTSEV DB, PERMYAKOV SE, PERMYAKOV EA, ROGOV VV, CAWTHERN KM and BERLINER LJ, 1997. Cooperative thermal transitions of bovine and human apo-alpha-lactalbumins: evidence for a new intermediate state. FEBS letters. 412(3), 625-8


VEPRINTSEV DB, PERMYAKOV EA, KALINICHENKO LP and BERLINER LJ, 1996. Pb2+ and Hg2+ binding to alpha-lactalbumin. Biochemistry and molecular biology international. 39(6), 1255-65


GRISHCHENKO VM, KALINICHENKO LP, DEIKUS GY, VEPRINTSEV DB, CAWTHERN KM, BERLINER LJ and PERMYAKOV EA, 1996. Interactions of alpha-lactalbumins with lipid vesicles studied by tryptophan fluorescence. Biochemistry and molecular biology international. 38(3), 453-66