Publications

  1. Lakhani, B., Thayer, K.M., Hingorani, M.M., Beveridge, D.L. (2017) “Evolutionary Covariance Combined with Molecular Dynamics Predicts a Framework for Allostery in the MutS DNA Mismatch Repair Protein” (2017) J Phys Chem B; doi: 10.1021/acs.jpcb.6b11976
  2. Gauer, J.W., LeBlanc, S., Hao P., Qiu, R., Case, B.C., Sakato, M., Hingorani, M.M., Erie, D.A., Weninger, K.R. (2016) “Single-Molecule FRET to Measure Conformational Dynamics of DNA Mismatch Repair Proteins” Methods Enzymol 581, 285-315.
  3. Qiu, R., Sakato, M., sacho, E.J., Wilkins, H., Zhang, X., Modrich, P., Hingorani, M.M., Erie, D.A., Weninger, K.R. (2015) “MutL traps MutS at a DNA mismatch” PNAS USA 112, 10914-9.
  4. Sharma, A., Doucette, C., Biro, F.N., Hingorani, M.M. (2013) “Slow conformational changes in MutS and DNA direct ordered transitions between mismatch search, recognition and signaling of DNA repair” Journal of Molelcular Biology 425, 4192-205.
  5. Dieckman, L.M., Boehm, E.M., Hingorani, M.M., Washington, M.T. (2013) “Distinct structural alterations in proliferating cell nuclear antigen block DNA mismatch repair” Biochemistry. 2013 52, 5611-9.
  6. Czyzyk, D.J., Sawant, S.S., Ramirez-Mondragon, C.A., Hingorani, M.M., Taylor, E.A. (2013) “Escherichia coli heptosyltransferase I: investigation of protein dynamics of a GT-B structural enzyme” Biochemistry 52, 5158-60.
  7. Qiu, R., DeRocco, V.C., Harris, C., Sharma, A., Hingorani, M.M., Erie, D.A., Weninger, K.R. (2012) “Large conformational changes in MutS during DNA scanning, mismatch recognition and repair signalling” The EMBO Journal 31, 2528-40.
  8. Das, S., Grady, L.M., Michtavy, J., Zhou, Y., Cohan, F.M., Hingorani, M.M., Oliver, D.B. (2012) “The variable subdomain of Escherichia coli SecA functions to regulate SecA ATPase activity and ADP release” Journal of Bacteriology 194, 2205-13.
  9. Cristóvão, M., Sisamakis, E., Hingorani, M.M,. Marx, A.D., Jung, C.P., Rothwell, P.J., Seidel, C.A., Friedhoff , P. (2012) “Single-molecule multiparameter fluorescence spectroscopy reveals directional MutS binding to mismatched bases in DNA” Nucleic Acids Research 40, 5448-64.
  10. Geng, H., Sakato, M., DeRocco, V., Yamane, K., Du, C., Erie, D.A., Hingorani, M.M., Hsieh, P. (2012) “Biochemical analysis of the human mismatch repair proteins hMutSα MSH2(G674A)-MSH6 and MSH2-MSH6(T1219D)” Journal of Biological Chemistry 287, 9777-91.
  11. Sakato, M., Zhou, Y., Hingorani, M.M. (2012) “ATP binding- and hydrolysis-driven rate-determining events in the RFC-catalyzed PCNA clamp loading reaction” Journal of Molecular Biology 416, 176-91.
  12. Sakato, M., O’Donnell, M., Hingorani, M.M. (2012) “A central swivel point in the RFC clamp loader controls PCNA opening and loading on DNA” Journal of Molecular Biology 416, 163-75.
  13. Pieniazek, S.N., Hingorani, M.M., Beveridge, D.L. (2011) “Dynamical allosterism in the mechanism of action of DNA mismatch repair protein MutS” Biophysics Journal 101, 1730-9.
  14. Heinen, C.D., Cyr, J.L., Cook, C., Punja, N., Sakato, M., Forties, R.A., Lopez, J.M., Hingorani, M.M., Fishel, R. (2011) “Human Msh2 protein controls ATP processing by hMsh2-hMsh6” Journal of Biological Chemistry 86, 40287-95.
  15. Biro, F.N., Zhai, J. Doucette C.W., Hingorani M.M. (2010) “Application of stopped-flow kinetics to investigate the mechanism of a DNA repair protein” J Vis. Exp 37, http://dx.doi.org/10.3791/1874 Link to video
  16. Zhai, J., Hingorani M.M. (2010) “S. cerevisiae Msh2-Msh6 DNA binding kinetics reveal a mechanism of targeting sites for DNA mismatch repair” PNAS USA 107, 680-685.
  17. Wieland, M., Levin, M.K., Hingorani, K.S., Biro, F. Noah, Hingorani, M.M. (2009) “Mechanism of cadmium-mediated inhibition of Msh2-Msh6 function in DNA mismatch repair” Biochemistry 48, 9492-9502.
  18. Levin, M.K., Hingorani, M.M., Holmes, R.M., Patel S.S., Carson, J.H. (2009) “Model-based global analysis of data using gfitMethods in Molecular Biology 500, 335-59.
  19. Chen, S., Levin, M.K., Sakato, M., Zhou, Y, Hingorani, M.M. (2009) “Mechanism of ATP-driven PCNA clamp loading by S. cerevisiae RFC” Journal of Molecular Biology 388, 431-42.
  20. Freudenthal, B.D., Ramaswamy, S., Hingorani, M.M., and Washington, M.T. (2008) “Structure of mutant form of proliferating cell nuclear antigen that blocks translesion DNA synthesis.” Biochemistry 47, 13354-61.
  21. Tessmer, I., Yang, Y., Zhai, J., Du, C., Hsieh, P., Hingorani, M.M., Erie, D.A. (2008) “Mechanism of MutS searching for DNA mismatches and signaling repair” Journal of Biological Chemistry 283, 36646-54.
  22. Chen, S., Coman, M.M., Sakato, M., O’Donnell, M. and Hingorani, M.M. (2008) “Conserved residues in the δ subunit help the E. coli clamp loader, γ complex, target primed DNA template for clamp assembly” Nucleic Acids Research 36, 3274-3286.
  23. Hingorani, M.M. (2007) “TIRF(ing) reveals Msh2-Msh6 surfing on DNA” Nature Structural and Molecular Biology 14, 1124-1125.
  24. Jacobs-Palmer, E. and Hingorani, M.M. (2007) “The effects of nucleotides on MutS-DNA binding kinetics clarify the role of MutS ATPase activity in mismatch repair” Journal of Molecular Biology 366, 1087-1098.
  25. Antony, E., Khubchandani, S. Chen, S. and Hingorani, M.M. (2006) “Contribution of Msh2 and Msh6 subunits to the asymmetric ATPase and DNA mismatch binding activities of S. cerevisiae Msh2-Msh6 mismatch repair protein.” DNA Repair 5, 153-162.
  26. Zito*, C.R., Antony*, E.A., Hunt, J.F., Oliver, D.B. and Hingorani, M.M. (2005) “Role of a conserved glutamate residue in the E. coli SecA ATPase mechanism.” Journal of Biological Chemistry 280, 14611-14619. *These authors contributed equally to the research.
  27. Antony, E.A. and Hingorani, M.M. (2004) “Asymmetric ATP binding and hydrolysis activity of the Thermus aquaticus MutS dimer is key to modulation of its interactions with mismatched DNA.” Biochemistry 43, 13115-13128.
  28. Coman, M.M., Jin, M., Ceapa, R., Finkelstein, J., O’Donnell, M., Chait, B.T. and Hingorani M.M. (2004) “Dual functions, clamp opening and primer-template recognition, define a key clamp loader subunit” Journal of Molecular Biology 342, 1457-1469.
  29. Hingorani, M.M. and O’Donnell, M. (2004) “DNA Elongation.” in The Bacterial Chromosome (ed., N. Pat Higgins), ASM Press, Washington D.C.
  30. Yao, N., Coryell, L., Zhang, D., Georgescu, R.E., Finkelstein, J., Coman, M.M., Hingorani, M.M. and O’Donnell, M. (2003) “Replication Factor C clamp loader subunit arrangement within the circular pentamer and its attachment points to Proliferating Cell Nuclear Antigen.” Journal of Biological Chemistry 278, 50744-50753.
  31. Antony, E.A. and Hingorani, M.M. (2003) “Mismatch recognition-coupled stabilization of Msh2-Msh6 in an ATP-bound state at initiation of DNA mismatch repair.” Biochemistry 42, 7682-7693.
  32. Finkelstein, J.F., Antony, E.A., Hingorani, M.M. and O’Donnell, M. (2003) “Over-production and analysis of eukaryotic multi-protein complexes in E. coli using a dual vector strategy.” Analytical Biochemistry 319, 78-87.
  33. Ason, B., Handayani, R., Williams, C., Bertram, J., Hingorani, M.M., O’Donnell, M., Goodman, M. and Bloom, L.B. (2003) “Mechanism of loading the E. coli DNA polymerase III β sliding clamp on DNA.” Journal of Biological Chemistry 278, 10033-10040.
  34. Coman, M.M. and Hingorani, M.M. (2002) “On the specificity of interaction between S. cerevisiae clamp loader, RFC, and primed DNA during DNA replication.” Journal of Biological Chemistry 277, 47213-47224.
  35. Jeruzalmi, D., Yurieva, O., Zhao, Y., Young, M., Stewart, J., Hingorani, M.M., O’Donnell, M., Kuriyan, J. (2001) “Mechanism of processivity clamp opening by the δ-subunit wrench of the clamp loader complex of E. coli DNA Polymerase III.” Cell 106, 417-428.
  36. Stewart, J., Hingorani, M.M., Kelman, Z., O’Donnell, M.E. (2001) “Mechanism of β clamp opening by the δ subunit of E. coli DNA Polymerase III holoenzyme.” Journal of Biological Chemistry 276, 19182-19189.
  37. Leu, F.P., Hingorani, M.M., Turner, J., O’Donnell, M.E. (2000) “The δ subunit of DNA polymerase III holoenzyme serves as the sliding clamp unloader in E. coli.” Journal of Biological Chemistry 275, 34609-34618.
  38. Bertram, J.G., Bloom, L.B., Hingorani, M.M., Beechem, J.M., O’Donnell, M., and Goodman, M.F. (2000) “Molecular mechanism and energetics of clamp assembly in Escherichia coli. The role of ATP hydrolysis when γ complex loads β on DNA.” Journal of Biological Chemistry 275, 28413-28420.
  39. Hingorani, M.M. and O’Donnell, M. (2000) “DNA polymerase structure and mechanisms.” Current Organic Chemistry 4, 887-913.
  40. Hingorani, M.M. and O’Donnell, M. (2000) “A tale of toroids in DNA metabolism.” Nature Reviews Cell and Molecular Biology 1, 22-30.
  41. Hingorani, M.M. and O’Donnell, M. (2000) “Sliding clamps: A (tail)ored fit.” Current Biology 10, R25-29.
  42. Hingorani, M.M. (1999) “S(t)imulating science.” Science 246, 2466-2467.
  43. Hingorani, M.M., Bloom, L.B., Goodman, M.F. and O’Donnell, M. (1999) “Division of labor-sequential ATP hydrolysis drives assembly of a DNA polymerase sliding clamp around DNA.” EMBO Journal 18, 5131-5144.
  44. Turner, J., Hingorani, M.M., Kelman, Z. and O’Donnell, M. (1999) “The internal workings of a DNA polymerase clamp-loading machine.” EMBO Journal 18, 771-783.
  45. Ason, B., Bertram, J.G., Hingorani, M.M., Beechem, J.M., O’Donnell, M., Goodman, M.F. and Bloom, L.B. (1999) “A model for E. coli DNA polymerase III holoenzyme assembly at primer/template ends: DNA triggers a change in binding specificity of the γ complex clamp loader.” Journal of Biological Chemistry 275, 3006-3015.
  46. Hingorani, M.M. and O’Donnell, M. (1998) “ATP binding to the E. coli clamp loader powers opening of the ring-shaped clamp of DNA polymerase III holoenzyme.” Journal of Biological Chemistry 273, 24550-24563.
  47. Hingorani, M.M. and O’Donnell, M. (1998) “Toroidal proteins: running rings around DNA.” Current Biology 8, R83-86.
  48. Hingorani, M.M., Washington, M.T., Moore, K.C. and Patel, S.S. (1997) “The dTTPase mechanism of T7 DNA helicase resembles the binding change mechanism of the F1-ATPase.” Proceedings of the National Academy of Sciences USA 94, 5012-5017.
  49. Yu, X., Hingorani, M.M., Patel, S.S. and Egelman, E.H. (1996) “DNA is bound in the central hole to one or two subunits of the T7 DNA helicase.” Nature Structural Biology 3, 740-743.
  50. Hingorani, M.M. and Patel S.S. (1996) “Cooperative interactions of nucleotide ligands are linked to oligomerization and DNA binding in bacteriophage T7 gene 4 helicases.” Biochemistry 35, 2218-2228.
  51. Egelman, E.H., Yu, X., Wild, R., Hingorani, M.M. and Patel, S.S. (1995) “T7 helicase/primase proteins form rings around single-stranded DNA that suggest a general structure for hexameric helicases.” Proceedings of the National Academy of Sciences USA 92, 3869-3873.
  52. Patel, S.S. and Hingorani, M.M. (1995) “Nucleotide binding studies of bacteriophage T7 DNA helicase-primase protein.” Biophysical Journal 68, 186s-190s.
  53. Patel, S.S., Hingorani, M.M. and Ng, W.M. (1994) “The K318A mutant of bacteriophage T7 primase-helicase protein is deficient in helicase but not primase activity and inhibits primase-helicase protein wild-type activities by hetero-oligomer formation.” Biochemistry 33, 7857-7868.
  54. Hingorani, M.M. and Patel S.S. (1993) “Interactions of bacteriophage T7 primase/helicase protein with single-stranded and double-stranded DNAs.” Biochemistry 32, 12478-12487.
  55. Patel, S.S. and Hingorani, M.M. (1993) “Oligomeric structure of bacteriophage T7 primase/helicase proteins.” Journal of Biological Chemistry 268, 10668-10675.
  56. Biro, F.N., Zhai, J. Doucette C.W. Hingorani M.M. (2010) “Application of stopped-flow kinetics to investigate the mechanism of a DNA repair protein” J Vis. Exp 37.