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Participatory role of zinc in structural and functional characterization of bioremediase: a unique thermostable microbial silica leaching protein

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Abstract

A unique protein, bioremediase (UniProt Knowledgebase Accession No.: P86277), isolated from a hot spring bacterium BKH1 (GenBank Accession No.: FJ177512), has shown to exhibit silica leaching activity when incorporated to prepare bio-concrete material. Matrix-assisted laser desorption ionization mass spectrometry analysis suggests that bioremediase is 78 % homologous to bovine carbonic anhydrase II though it does not exhibit carbonic anhydrase-like activity. Bioinformatics study is performed for understanding the various physical and chemical parameters of the protein which predicts the involvement of zinc encircled by three histidine residues (His94, His96 and His119) at the active site of the protein. Isothermal titration calorimetric-based thermodynamic study on diethyl pyrocarbonate-modified protein recognizes the presence of Zn2+ in the enzyme moiety. Exothermic to endothermic transition as observed during titration of the protein with Zn2+ discloses that there are at least two binding sites for zinc within the protein moiety. Addition of Zn2+ regains the activity of EDTA chelated bioremediase confirming the presence of extra binding site of Zn2+ in the protein moiety. Revival of folding pattern of completely unfolded urea-treated protein by Zn2+ explains the participatory role of zinc in structural stability of the protein. Restoration of the λ max in intrinsic fluorescence emission study of the urea-treated protein by Zn2+ similarly confirms the involvement of Zn in the refolding of the protein. The utility of bioremediase for silica nanoparticles preparation is observed by field emission scanning electron microscopy.

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References

  1. Morozkina EV, Slutskaya ES, Fedorova TV, Tugay TI, Golubeva LI, Koroleva OV (2010) Appl Biochem Microbiol 46:1–14

    Article  CAS  Google Scholar 

  2. Sokolova TG, Jeanthon C, Kostrikina NA, Chernyh NA, Lebedinsky AV, Stackebrandt E, Bonch-Osmolovskaya EA (2004) Extremophiles 8:317–323

    Article  CAS  PubMed  Google Scholar 

  3. Biswas M, Majumdar S, Chowdhury T, Chattopadhyay BD, Mandal S, Halder U, Yamasaki S (2010) Enzym Microbial Technol 46:581–587

    Article  CAS  Google Scholar 

  4. Champdore M, Staiano M, Rossi M, D’Auria S (2007) J R Soc Interface 4:183–191

    Article  PubMed Central  PubMed  Google Scholar 

  5. Bertoldo C, Antranikian G (2002) Curr Opin Chem Biol 6:151–160

    Article  CAS  PubMed  Google Scholar 

  6. Ratnaparkhe A, Tiwari A (2011) Int J Biomed Res 2:1–17

    Article  CAS  Google Scholar 

  7. Tango MSA, Islam MR (2002) Energy Sour 24:543–559

    CAS  Google Scholar 

  8. D’Amico S, Marx JC, Gerday C, Feller G (2003) J Bio Chem 278:7891–7896

    Article  Google Scholar 

  9. Cox EH, McLendon GL (2000) Curr Opin Chem Biol 4:162–165

    Article  CAS  PubMed  Google Scholar 

  10. Laura MP, Lothar R, Hajo H (2010) Int J Environ Res Public Health 7:1342–1365

    Article  Google Scholar 

  11. Leavitt S, Freire E (2001) Curr Opin Struct Biol 11:560–566

    Article  CAS  PubMed  Google Scholar 

  12. De Wolf FA, Brett GM (2000) Pharmacol Rev 52:207–236

    Google Scholar 

  13. Nyborg JK, Peersen OB (2004) Biochem J 381:e3–e4

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  14. Kloczkowski A, Ting KL, Jernigan RL, Garnier J (2002) Polymer 43:441–449

    Article  CAS  Google Scholar 

  15. Golestannejad Z, Gavanji S, Doostmohammadi M (2014) WALIA J 30(S3):33–42

    Google Scholar 

  16. Onuchic JN, Wolynes PG (2004) Curr Opin Struct Biol 14:70–75

    Article  CAS  PubMed  Google Scholar 

  17. Drews J (2000) Science 287:1960–1964

    Article  CAS  PubMed  Google Scholar 

  18. Belkova LN (2005) Geophys Res Abstr 7

  19. Ghosh P, Mandal S, Chattopadhyay BD, Pal S (2005) Cem Concr Res 35:1980–1983

    Article  CAS  Google Scholar 

  20. Ghosh S, Biswas M, Chattopadhyay BD, Mandal S (2009) Cem Concr Compos 31:93–98

    Article  CAS  Google Scholar 

  21. Majumdar S, Sarkar M, Chowdhury T, Chattopadhyay BD, Mandal S (2012) Open J Civ Eng 2:218–228

    Article  Google Scholar 

  22. Ramachandran SK, Ramkrishnan V, Bang SS (2001) ACI Matl J 98:3–9

    CAS  Google Scholar 

  23. Sarkar M, Chowdhury T, Chattopadhyay BD, Gachhui R, Mandal S (2014) J Mat Sci 49:4461–4468

    Article  CAS  Google Scholar 

  24. Chattopadhyay B, Mandal S, Jonkers HM, Guang Y, Majumdar S, Chowdhury T (2010) Int J 3 R’s 1:140–145

    Google Scholar 

  25. Schroder HC, Krasko A, Pennec GLE, Adell T, Wiens M, Hassanein H, Muller IM, Muller WEG (2003) Prog Mol Subcell Biol 33:250–268

    Google Scholar 

  26. Luckarift HR, Spain JC, Naik RR, Stone MO (2004) Nat Biotechnol 22:211–213

    Article  CAS  PubMed  Google Scholar 

  27. Naik RR, Tomczak MM, Luckarift HR, Spain JC, Stone MO (2004) Chem Comm 77:1684–1685

    Article  Google Scholar 

  28. Kroger N, Deutzmann R, Sumper M (1999) Science 286:1129–1132

    Article  CAS  PubMed  Google Scholar 

  29. Harrison CC (1996) Phytochem 41:37–42

    Article  CAS  Google Scholar 

  30. Figueroa MP, Barrera F, Cesaretti NN (2008) Micron 39:1027–1035

    Article  Google Scholar 

  31. Nomura T, Moromoto Y, Ishikawa M, Tokumoto H, Konishi Y (2010) Adv Powder Technol 21:218–222

    Article  Google Scholar 

  32. Show S, Tamang A, Chowdhury T, Mandal D, Chattopadhyay BD (2015) Colloids Surf B 126:245–250

    Article  CAS  Google Scholar 

  33. Shu N, Zhou T, Hovmöller S (2008) Bioinformatics 24:775–782

    Article  CAS  PubMed  Google Scholar 

  34. Sathyan N, Philip R, Chaithanya ER, Kumar PRA (2012) ISRN Mol Biol. doi:10.5402/2012/219656

  35. Gasteiger E, Hoogland C, Gattiker A, Duvaud S, Wilkins MR, Appel RD, Bairoch A (2005) In: Walker JM (ed) The proteomics protocols handbook. Humana Press, USA, pp 571–607

    Chapter  Google Scholar 

  36. Garnier J, Osguthorpe DJ, Robson B (1978) J Mol Biol 120:97–120

    Article  CAS  PubMed  Google Scholar 

  37. McCall KA, Huang C, Fierke CA (2000) J Nutr 130:1437S–1446S

    CAS  PubMed  Google Scholar 

  38. Kelly LA, Sternberg MJE (2009) Nat Protoc 4(3):363–371

    Article  Google Scholar 

  39. Chao Y, Fu D (2004) J Biol Chem 279:173–180

    Google Scholar 

  40. Ehrlich H, Demadis KD, Pokrovsky OS, Koutsoukos PG (2010) Chem Rev 110:4656–4689

    Article  CAS  PubMed  Google Scholar 

Download references

Acknowledgments

The financial support from Department of Biotechnology, Government of India (Project sanctioned No. 102/DBT/IFD/SAN/PR-430/2011–12, Dated 27.05.11) is gratefully acknowledged. Authors are grateful to IICB, Central Facility for Mass Spectrometric Study and DBT-IPLS of Calcutta University for ITC experimental support.

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Authors and Affiliations

  1. Department of Physics, Jadavpur University, Kolkata, 700032, India

    Trinath Chowdhury, Manas Sarkar, Biswadeep Chaudhuri & Brajadulal Chattopadhyay

  2. Department of Chemistry, Jadavpur University, Kolkata, 700032, India

    Umesh Chandra Halder

Authors
  1. Trinath Chowdhury
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  2. Manas Sarkar
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  3. Biswadeep Chaudhuri
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  4. Brajadulal Chattopadhyay
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  5. Umesh Chandra Halder
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Correspondence to Brajadulal Chattopadhyay.

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Chowdhury, T., Sarkar, M., Chaudhuri, B. et al. Participatory role of zinc in structural and functional characterization of bioremediase: a unique thermostable microbial silica leaching protein. J Biol Inorg Chem 20, 791–803 (2015). https://doi.org/10.1007/s00775-015-1266-2

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  • DOI: https://doi.org/10.1007/s00775-015-1266-2

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