Influence of Scan Rate on Simulation of Differential Scanning Calorimetry Profiles of Protein Denaturationt

Maryam Ghadamgahi

Influence of Scan Rate on Simulation of Differential Scanning Calorimetry Profiles of Protein Denaturationt

Maryam Ghadamgahi * §

Contact

§ Damghan/damghan university

Influence of Scan Rate on Simulation of Differential Scanning Calorimetry Profiles of Protein Denaturationt

Article Fingerprint

ReserarchID

0IN46

Influence of Scan Rate on Simulation of Differential Scanning Calorimetry Profiles of Protein Denaturationt Banner

Key Research Insights

Synthesized scholarly intelligence & interactive research assistant

This converted HTML version may contain rendering inconsistencies. Please refer to the PDF for the authoritative version, or click here to provide feedback.

Abstract

The heat capacity has played a major role in proteins. Its calculation by atomistic simulation methods remains a significant challenge due to the complex and dynamic nature of protein structures and this work compares the denaturation effect of bovine carbonic anhydrase (BCA) by heat, pH and scan rate dependence of protein denaturation by molecular dynamics (MD) simulation. To better understand this factor on calculating a protein heat capacity and T m , we have provided a comparative analysis of simulation models that differ in their scan rate and pH description. Our model protein system is the carbonic anhydrase, and a series of 20 ns simulated DSC with different scan rate (v= 0.10, 0.0125, 0.015 and 0.02 K/ps) and pH have been reported by simulated annealing performed at temperatures ranging from 250 to 575 K, starting from the carbonic anhydrase native structure. It was observed that, our systems were quite sensitive to the description and the calculated melting temperature (T m ) varied in the range 353-438 K and was higher for higher scan rates systems and lower for acidic condition.

References

33 Cites in Article

Reference Format

1. William Sly,Peiyi Hu (1995). HUMAN CARBONIC ANHYDRASES AND CARBONIC ANHYDRASE DEFICIENCIES. Annual Review of Biochemistry, 64(1), 375-401.
2. S Lindskog (1997). Unknown Title. Pharmacol Ther, 74, 1-20.
3. S Thoms (2002). Unknown Title. J Theor Biol, 215, 9399-9404.
4. G Bruylants,J Wouters,C Michaux (2005). Unknown Title. Curr Med Chem, 1, 2011-2020.
5. Arnoldus Vermeer,Willem Norde,Aar Van Amerongen (2000). The Unfolding/Denaturation of Immunogammaglobulin of Isotype 2b and its Fab and Fc Fragments. Biophysical Journal, 79(4), 2150-2154.
6. Arnoldus Vermeer,Willem Norde (2000). The Thermal Stability of Immunoglobulin: Unfolding and Aggregation of a Multi-Domain Protein. Biophysical Journal, 78(1), 394-404.
7. L Baranauskiene,J Matuliene,D Matulis (2008). Unknown Title. J Biochem Bioph Meth, 70, 1043-1047.
8. M Gorania,H Seker,P I Haris (2010). Unknown Title. Conf Proc IEEE Eng Med Biol Soc, 10, 820-823.
9. I Karantzeni,C Ruiz,C Liu,V J Licata (2003). Unknown Title. Biochem J, 374, 785-792.
10. Jamshid Davoodi,Warren Wakarchuk,Witold Surewicz,Paul Carey (1998). Scan‐rate dependence in protein calorimetry: The reversible transitions of Bacillus circulans xylanase and a disulfide‐bridge mutant. Protein Science, 7(7), 1538-1544.
11. James Lepock,Kenneth Ritchie,Michael Kolios,A Rodahl,Karl Heinz,Jack Kruuv (1992). Influence of transition rates and scan rate on kinetic simulations of differential scanning calorimetry profiles of reversible and irreversible protein denaturation. Biochemistry, 31(50), 12706-12712.
12. G Zhadan,V L Shnyrov (1994). Differential-scanning-calorimetric study of the irreversible thermal denaturation of 8 kDa cytotoxin from the sea anemone Radianthus macrodactylus. Biochemical Journal, 299(3), 731-733.
13. M Galisteo,J Sanchez-Ruiz (1993). Unknown Title. Eur Biophys J, 22, 25-30.
14. E Freire,W Van Osdol,O Mayorga,J Sanchez-Ruiz (1990). Unknown Title. Annu Rev Biophys, 19, 159-188.
15. M Gahsteo,P Mateo,J Sanchez-Ruiz (1991). Unknown Title. Biochem, 30, 2061-2066.
16. J Ruiz-Sanz,J Ruiz-Cabello,O Lopez-Mayorga,M Cortijo,P Mateo (1992). Thermal stability of bovine-brain myelin membrane. European Biophysics Journal, 21(3), 71-76.
17. Jose Sanchez-Ruiz (1992). Theoretical analysis of Lumry-Eyring models in differential scanning calorimetry. Biophysical Journal, 61(4), 921-935.
18. J M Sanchez-Ruiz,J Lopez-Lacomba,M Cortijo,Mateo P L (1998). Unknown Title. Biochem, 27, 1648-1652.
19. J M Sanchez-Ruiz,Mateo P L (1987). Unknown Title. Biol Rev, 11, 15-45.
20. I Ana,F Azuaga,Esteve,Pedro L M (1996). Unknown Title. Biochem, 35, 16328-16335.
21. K Gudiksen,I Gitlin,D Moustakas,G M Whiteside (2006). Unknown Title. Biophys, 91, 298-310.
22. V Krishnamurthy,B Bohall,V Semetey,G M Whitesides (2006). Unknown Title. J Am Chem Soc, 128, 5802-5812.
23. U Carlsson,B H Jonsson (2000). The carbonic anhydrases: new horizons. The carbonic anhydrases: new horizons, 241-259.
24. David Christianson,Carol Fierke (1996). Carbonic Anhydrase: Evolution of the Zinc Binding Site by Nature and by Design. Accounts of Chemical Research, 29(7), 331-339.
25. M Karplus,J A Mccammon (2002). Unknown Title. J Struct Biol, 9, 646-652.
26. Davood Ajloo,Elias Taghizadeh,Ali. Saboury,Elahe Bazyari,Karim Mahnam (2008). Effects of surfactant, salt and solvent on the structure and activity of adenosine deaminase: Molecular dynamic and spectrophotometric studies. International Journal of Biological Macromolecules, 43(2), 151-158.
27. D Ajloo,S Hajipour,A Saboury,S Zakavi (2011). Unknown Title. Bull. Korean Chem. Soc, 32, 3411-3420.
28. P Dasmeh,D J Searles,D Ajloo,D Evans,S R Williams (2009). Unknown Title. J Chem Phys, 131, 214503-214507.
29. M Ghadamgahi,D Ajloo (2011). Unknown Title. J Porphyr Phthalocya, 15, 240-256.
30. D Matulis,J K Kranz,F Salemme,M J Todd (2005). Unknown Title. Biochem, 44, 5258-5266.
31. J Brandts,L N Lin (1990). Unknown Title. Biochem, 29, 6927-6940.
32. Irene Karantzeni,Carmen Ruiz,Chin-Chi Liu,Vince Licata (2003). Comparative thermal denaturation of Thermus aquaticus and Escherichia coli type 1 DNA polymerases. Biochemical Journal, 374(3), 785-792.
33. Thomas Vogl,Claudia Jatzke,Hans-Jürgen Hinz,Jörg Benz,Robert Huber (1997). Thermodynamic Stability of Annexin V E17G: Equilibrium Parameters from an Irreversible Unfolding Reaction^,. Biochemistry, 36(7), 1657-1668.

Download References

Funding

No external funding was declared for this work.

Conflict of Interest

The authors declare no conflict of interest.

Ethical Approval

No ethics committee approval was required for this article type.

Data Availability

Not applicable for this article.

How to Cite This Article

Maryam Ghadamgahi. 2016. "Influence of Scan Rate on Simulation of Differential Scanning Calorimetry Profiles of Protein Denaturationt". Global Journal of Research in Engineering - C: Chemical Engineering GJRE-C Volume 15 (GJRE Volume 15 Issue C3).

More Citation Formats

Select Citation Style:

Download Citation

GJRE Volume 15 Issue C3

Explore Journals Explore Volume Read This Issue

Journal Specifications

Crossref Journal DOI 10.17406/gjre

Print ISSN 0975-5861

e-ISSN 2249-4596

Keywords

Not Found

Classification

GJRE-C Classification FOR Code: 030599

030505

Submission ReceivedApril 9, 2015
Peer Review Double Blind
Handling Editor
Accepted May 5, 2015
Published May 15, 2015

Version of record

v1.2

Issue date

January 9, 2016

Language

English

Order Article Reprint

Experience in AR

Explore published articles in an immersive Augmented Reality environment. Our platform converts research papers into interactive 3D books, allowing readers to view and interact with content using AR and VR compatible devices.

View in VR

Read in 3D

Your published article is automatically converted into a realistic 3D book. Flip through pages and read research papers in a more engaging and interactive format.

View in 3D

Article Matrices

Total Score: 82

Country: Iran

Subject: Global Journal of Research in Engineering - C: Chemical Engineering

Authors: Maryam Ghadamgahi, Davood Ajloo (PhD/Dr. count: 0)

View Count (all-time): 483

Total Views (Real + Logic): 1881

Total Downloads (simulated): 106

Publish Date: 2016 01, Sat

Monthly Totals (Real + Logic):

Month 1: 42 views
Month 2: 41 views
Month 3: 35 views
Month 4: 27 views
Month 5: 60 views
Month 6: 41 views
Month 7: 43 views
Month 8: 52 views
Month 9: 38 views
Month 10: 54 views
Month 11: 35 views
Month 12: 34 views
Month 13: 27 views
Month 14: 34 views
Month 15: 28 views
Month 16: 35 views
Month 17: 32 views
Month 18: 31 views
Month 19: 35 views
Month 20: 19 views
Month 21: 10 views
Month 22: 27 views
Month 23: 16 views
Month 24: 18 views
Month 25: 44 views
Month 26: 43 views
Month 27: 42 views
Month 28: 40 views
Month 29: 15 views
Month 30: 42 views
Month 31: 27 views
Month 32: 35 views
Month 33: 28 views
Month 34: 46 views
Month 35: 49 views
Month 36: 44 views
Month 37: 37 views
Month 38: 43 views
Month 39: 33 views
Month 40: 46 views
Month 41: 23 views
Month 42: 38 views
Month 43: 33 views
Month 44: 39 views
Month 45: 24 views
Month 46: 26 views
Month 47: 39 views
Month 48: 12 views
Month 49: 45 views
Month 50: 40 views
Month 51: 32 views
Month 52: 43 views
Month 53: 15 views
Month 54: 46 views
Month 55: 36 views
Month 56: 25 views
Month 57: 44 views
Month 58: 21 views
Month 59: 28 views
Month 60: 25 views
Month 61: 41 views
Month 62: 43 views
Month 63: 23 views
Month 64: 23 views
Month 65: 34 views
Month 66: 21 views
Month 67: 17 views
Month 68: 37 views
Month 69: 17 views
Month 70: 33 views
Month 71: 35 views
Month 72: 20 views
Month 73: 38 views
Month 74: 10 views
Month 75: 37 views
Month 76: 22 views
Month 77: 30 views
Month 78: 28 views
Month 79: 22 views
Month 80: 26 views
Month 81: 37 views
Month 82: 32 views
Month 83: 39 views
Month 84: 13 views
Month 85: 34 views
Month 86: 22 views
Month 87: 26 views
Month 88: 50 views
Month 89: 26 views
Month 90: 41 views
Month 91: 33 views
Month 92: 38 views
Month 93: 31 views
Month 94: 39 views
Month 95: 20 views
Month 96: 40 views
Month 97: 45 views
Month 98: 36 views
Month 99: 14 views
Month 100: 27 views
Month 101: 27 views
Month 102: 29 views
Month 103: 30 views
Month 104: 36 views
Month 105: 15 views
Month 106: 36 views
Month 107: 42 views
Month 108: 19 views
Month 109: 30 views
Month 110: 31 views
Month 111: 32 views
Month 112: 34 views
Month 113: 25 views
Month 114: 22 views
Month 115: 36 views
Month 116: 25 views
Month 117: 31 views
Month 118: 39 views
Month 119: 17 views
Month 120: 25 views
Month 121: 17 views
Month 122: 71 views
Month 123: 88 views
Month 124: 55 views
Month 125: 84 views
Month 126: 76 views
Month 127: 28 views
Month 128: 36 views
Month 129: 49 views
Month 130: 70 views

Total Views: 1.9K

Total Downloads: 106

All Trends